AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0099940

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0099940 MtrunA17_Chr8g0347021 82.353 119 2 1 60 159 28 146 9.35e-64 192
Msa0099940 MtrunA17_Chr8g0347341 83.051 118 1 1 61 159 179 296 1.51e-61 191
Msa0099940 MtrunA17_Chr8g0347341 92.063 63 5 0 1 63 1 63 3.48e-34 121
Msa0099940 MtrunA17_Chr1g0150351 89.320 103 0 1 1 92 1 103 2.52e-60 183
Msa0099940 MtrunA17_Chr8g0347031 93.651 63 4 0 1 63 1 63 1.12e-36 121
Msa0099940 MtrunA17_Chr8g0347041 92.063 63 5 0 1 63 1 63 1.31e-34 120
Msa0099940 MtrunA17_Chr1g0150341 94.737 57 3 0 91 147 5 61 2.85e-33 112
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0099940 AT5G10780.1 71.271 181 29 3 1 159 1 180 1.49e-69 208
Msa0099940 AT5G10780.2 71.598 169 25 3 1 147 1 168 3.08e-63 192

Find 88 sgRNAs with CRISPR-Local

Find 204 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTCTCTTGGAGGAATTTA+AGG 0.091841 1_3:+6314646 Msa0099940:three_prime_UTR
GGTATTCATCGCCCTTAATT+TGG 0.174653 1_3:+6313421 Msa0099940:CDS
TACTGCAAATCTGATGTAAA+AGG 0.202542 1_3:+6314889 Msa0099940:three_prime_UTR
ATCATTAACAAGTTCTTAAA+TGG 0.219625 1_3:-6312381 None:intergenic
GTAACATGCCTCCCAAATTA+AGG 0.244098 1_3:-6313433 None:intergenic
CTTGGAGGAATTTAAGGATT+TGG 0.280619 1_3:+6314652 Msa0099940:three_prime_UTR
CTTCACAATGGGAAGGTTAC+AGG 0.295260 1_3:-6315024 None:intergenic
TGAAGCAGGTATACAAAATA+TGG 0.299528 1_3:+6315042 Msa0099940:three_prime_UTR
TGGATTCAGCATCTTTCTTT+TGG 0.301710 1_3:-6311887 None:intergenic
CTGAAAGAACAATAAGAATT+CGG 0.312632 1_3:-6314969 None:intergenic
TCTTCTGCAGCTCAATTCAT+TGG 0.332546 1_3:+6313831 Msa0099940:intron
CTTTGTATCTCTTTGTATGT+AGG 0.333936 1_3:+6314827 Msa0099940:three_prime_UTR
AAGGGTGTGATGGGATCTTC+TGG 0.346236 1_3:+6311756 Msa0099940:CDS
GTATTCATCGCCCTTAATTT+GGG 0.348550 1_3:+6313422 Msa0099940:CDS
TACAAACCATGTCTAATCTT+TGG 0.367592 1_3:-6314765 None:intergenic
CTCTTTCATTCATTCATAGT+TGG 0.368002 1_3:+6311641 None:intergenic
GATGCTAAAGTGGAGCTTCT+TGG 0.369452 1_3:+6313389 Msa0099940:CDS
AATAGCATACTAGAAATGTT+AGG 0.385259 1_3:+6314913 Msa0099940:three_prime_UTR
ATTTAAGAACTTGTTAATGA+TGG 0.394212 1_3:+6312383 Msa0099940:CDS
ATCGCGAGAAGTTGAATTAT+CGG 0.394794 1_3:-6311802 None:intergenic
GAGGGAAGCGCGTGAGAAAC+CGG 0.398618 1_3:-6311838 None:intergenic
AATTTGGGAGGCATGTTACT+AGG 0.402445 1_3:+6313437 Msa0099940:CDS
GAGGCATGTTACTAGGTGTT+TGG 0.405795 1_3:+6313444 Msa0099940:CDS
CGATTCAATTCAATGGATAA+AGG 0.406344 1_3:+6311732 Msa0099940:exon
ATGCTAAAGTGGAGCTTCTT+GGG 0.409851 1_3:+6313390 Msa0099940:CDS
TCCACTTTAGCATCTTTGTA+AGG 0.413449 1_3:-6313380 None:intergenic
TGAAAGAACAATAAGAATTC+GGG 0.413709 1_3:-6314968 None:intergenic
CTTCTGCAGCTCAATTCATT+GGG 0.415950 1_3:+6313832 Msa0099940:intron
TCTTCAGCGATTCAATTCAA+TGG 0.418706 1_3:+6311725 Msa0099940:exon
TGGTCACAAATGATCTCATT+AGG 0.422294 1_3:+6314694 Msa0099940:three_prime_UTR
AAGAATGAGTGAAGAGAAGA+AGG 0.424461 1_3:-6311706 None:intergenic
ATTGTTGGAAACAGAAAGCT+TGG 0.427332 1_3:+6312343 Msa0099940:intron
TTTAAGAACTTGTTAATGAT+GGG 0.445845 1_3:+6312384 Msa0099940:CDS
AGAAAGATGCTGAATCCAAT+TGG 0.446637 1_3:+6311892 Msa0099940:CDS
TAACCTTCCCATTGTGAAGC+AGG 0.447117 1_3:+6315028 Msa0099940:three_prime_UTR
ATAGCATACTAGAAATGTTA+GGG 0.456027 1_3:+6314914 Msa0099940:three_prime_UTR
TAACATGCCTCCCAAATTAA+GGG 0.464691 1_3:-6313432 None:intergenic
GGGTTTATGATGTGGATGGC+TGG 0.475763 1_3:+6312405 Msa0099940:CDS
AACATAGACATTTAAAAGAA+AGG 0.477427 1_3:-6314995 None:intergenic
TTGTATACCTGCTTCACAAT+GGG 0.483638 1_3:-6315035 None:intergenic
TTCCTACCCACACATCAGAC+TGG 0.494006 1_3:+6313860 Msa0099940:CDS
TGGGATCTTCTGGACGAAGA+TGG 0.499581 1_3:+6311766 Msa0099940:CDS
TGAATCCAATTGGAAATCTC+AGG 0.499594 1_3:+6311902 Msa0099940:CDS
AAAGAAAATCCAACCTGAGC+AGG 0.500189 1_3:-6313898 None:intergenic
CAGGAGGTGGAGTACTCAGG+TGG 0.509179 1_3:+6314581 Msa0099940:intron
GTCATCCTTAGCACCTGCTC+AGG 0.516236 1_3:+6313885 Msa0099940:CDS
GTACTGTTAGCATGTTGTAA+TGG 0.518335 1_3:+6314674 Msa0099940:three_prime_UTR
GATAAAGGAAAGGGTGTGAT+GGG 0.521901 1_3:+6311747 Msa0099940:CDS
CTTCAGGAGGTGGAGTACTC+AGG 0.524189 1_3:+6314578 Msa0099940:intron
GAGGTGGAGTACTCAGGTGG+GGG 0.524742 1_3:+6314584 Msa0099940:CDS
GGAGCTTCTTGGGCCTAAGT+TGG 0.528352 1_3:+6313400 Msa0099940:CDS
CGCGATATTATCGATCCTCC+CGG 0.529746 1_3:+6311819 Msa0099940:CDS
ACCTTACAAAGATGCTAAAG+TGG 0.529869 1_3:+6313379 Msa0099940:CDS
GGGATCTTCTGGACGAAGAT+GGG 0.531311 1_3:+6311767 Msa0099940:CDS
ACTGTTCACTTGTTTAGCAT+CGG 0.532087 1_3:+6312432 Msa0099940:CDS
GCATACCTGAGATTTCCAAT+TGG 0.533753 1_3:-6311907 None:intergenic
AGGAGGTGGAGTACTCAGGT+GGG 0.535718 1_3:+6314582 Msa0099940:intron
CATGTTACTAGGTGTTTGGA+AGG 0.537062 1_3:+6313448 Msa0099940:CDS
GAAAGCTTGGGAAGTTGCAC+AGG 0.537408 1_3:+6312356 Msa0099940:intron
TCCAACCTGAGCAGGTGCTA+AGG 0.537452 1_3:-6313890 None:intergenic
CAGTCACCAAAGATTAGACA+TGG 0.538585 1_3:+6314759 Msa0099940:three_prime_UTR
TCTTTGGTGACTGCAAGTAC+TGG 0.538929 1_3:-6314749 None:intergenic
GGATAAAGGAAAGGGTGTGA+TGG 0.543038 1_3:+6311746 Msa0099940:CDS
CTTAAGAACTGGAGCATCAA+CGG 0.547901 1_3:-6314616 None:intergenic
AATTCAATGGATAAAGGAAA+GGG 0.549939 1_3:+6311738 Msa0099940:exon
GGAGGTGGAGTACTCAGGTG+GGG 0.550312 1_3:+6314583 Msa0099940:intron
TCCTACCCACACATCAGACT+GGG 0.552562 1_3:+6313861 Msa0099940:CDS
AGGGCGATGAATACCAACTT+AGG 0.558217 1_3:-6313413 None:intergenic
AGGGAAGCGCGTGAGAAACC+GGG 0.558868 1_3:-6311837 None:intergenic
CAATTCAATGGATAAAGGAA+AGG 0.565610 1_3:+6311737 Msa0099940:exon
TTGTTGGAAACAGAAAGCTT+GGG 0.565750 1_3:+6312344 Msa0099940:intron
TTAAGAACTTGTTAATGATG+GGG 0.568371 1_3:+6312385 Msa0099940:CDS
TTTGTATACCTGCTTCACAA+TGG 0.573399 1_3:-6315036 None:intergenic
TTCATCGCCCTTAATTTGGG+AGG 0.578157 1_3:+6313425 Msa0099940:CDS
GGTAGAATCGTCTTGATCGA+GGG 0.585755 1_3:-6311856 None:intergenic
AGAATGAGTGAAGAGAAGAA+GGG 0.591696 1_3:-6311705 None:intergenic
TAATGATGGGGTTTATGATG+TGG 0.592983 1_3:+6312397 Msa0099940:CDS
GGGTAGAATCGTCTTGATCG+AGG 0.613210 1_3:-6311857 None:intergenic
TGAATTATCGGAGAAATCAA+CGG 0.616548 1_3:-6311790 None:intergenic
ATACCTGCTTCACAATGGGA+AGG 0.628040 1_3:-6315031 None:intergenic
ACATACAAAGAGATACAAAG+AGG 0.639704 1_3:-6314824 None:intergenic
GATGGGGTTTATGATGTGGA+TGG 0.644891 1_3:+6312401 Msa0099940:CDS
CATACTAGAAATGTTAGGGG+AGG 0.666754 1_3:+6314918 Msa0099940:three_prime_UTR
TGACACCCAGTCTGATGTGT+GGG 0.677476 1_3:-6313866 None:intergenic
TAGCATACTAGAAATGTTAG+GGG 0.703626 1_3:+6314915 Msa0099940:three_prime_UTR
ATGACACCCAGTCTGATGTG+TGG 0.709294 1_3:-6313867 None:intergenic
GAAGCGCGTGAGAAACCGGG+AGG 0.725314 1_3:-6311834 None:intergenic
ACCCAGTCTGATGTGTGGGT+AGG 0.740029 1_3:-6313862 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTGATTAATTATATTGT+TGG + chr1_3:6312328-6312347 Msa0099940:intron 10.0%
!! GAAAAATAATAATAAGTATA+TGG - chr1_3:6313790-6313809 None:intergenic 10.0%
!! AAAATACAGAAATTATACAT+AGG - chr1_3:6311983-6312002 None:intergenic 15.0%
!! TATTTAACAAAACAACAAAA+AGG - chr1_3:6312543-6312562 None:intergenic 15.0%
!! TTTATATTATGGATGAAATT+AGG + chr1_3:6312763-6312782 Msa0099940:intron 15.0%
!! TATGTTCTATAATATATTTG+AGG + chr1_3:6313700-6313719 Msa0099940:intron 15.0%
!! TTGTATGTTATTAAAATGTT+TGG + chr1_3:6314091-6314110 Msa0099940:intron 15.0%
!! TGTATGTTATTAAAATGTTT+GGG + chr1_3:6314092-6314111 Msa0099940:intron 15.0%
!! TTTGAAAATAAATCTATAAC+TGG + chr1_3:6314430-6314449 Msa0099940:intron 15.0%
!!! AAAAAAAATCTATAACTTGT+TGG + chr1_3:6314463-6314482 Msa0099940:intron 15.0%
!! AGTTACAATAATTAGTTACA+TGG - chr1_3:6312254-6312273 None:intergenic 20.0%
!! ATCATTAACAAGTTCTTAAA+TGG - chr1_3:6312384-6312403 None:intergenic 20.0%
!!! ATTTAAGAACTTGTTAATGA+TGG + chr1_3:6312383-6312402 Msa0099940:CDS 20.0%
!!! TTTAAGAACTTGTTAATGAT+GGG + chr1_3:6312384-6312403 Msa0099940:CDS 20.0%
!! CAATGTTGATATTATTAGAA+TGG - chr1_3:6312625-6312644 None:intergenic 20.0%
!! ATACAATTACAATCATTGAA+TGG - chr1_3:6312677-6312696 None:intergenic 20.0%
!!! GAGGTTGATTATTTATATTA+TGG + chr1_3:6312752-6312771 Msa0099940:intron 20.0%
!!! CTTAATATGTATTTGTTGAA+TGG + chr1_3:6313039-6313058 Msa0099940:intron 20.0%
!!! GAACACTTTATTTTAAATTG+TGG + chr1_3:6313195-6313214 Msa0099940:intron 20.0%
!!! TTTAACTCATTTTTGTTTCA+AGG - chr1_3:6313484-6313503 None:intergenic 20.0%
!!! TTACCTCAAATTTTAAGTTT+TGG + chr1_3:6313645-6313664 Msa0099940:intron 20.0%
!!! CTATAATATATTTGAGGTTT+AGG + chr1_3:6313706-6313725 Msa0099940:intron 20.0%
!! TTAATAACATACAATGCTAT+GGG - chr1_3:6314085-6314104 None:intergenic 20.0%
!! TTTAATAACATACAATGCTA+TGG - chr1_3:6314086-6314105 None:intergenic 20.0%
!!! TGGTTTTTTTTTTTTTTCCT+GGG - chr1_3:6314134-6314153 None:intergenic 20.0%
!!! CATTATTTCTGATATTAAAG+TGG - chr1_3:6314404-6314423 None:intergenic 20.0%
!!! AGTTATAGATTTTTTTTCAG+TGG - chr1_3:6314460-6314479 None:intergenic 20.0%
!! AACATAGACATTTAAAAGAA+AGG - chr1_3:6314998-6315017 None:intergenic 20.0%
! AATTCAATGGATAAAGGAAA+GGG + chr1_3:6311738-6311757 Msa0099940:exon 25.0%
! TCAACTGATAATAAACGAAA+GGG - chr1_3:6312117-6312136 None:intergenic 25.0%
!! AACAATCGTAAATAGTTTGT+TGG - chr1_3:6312159-6312178 None:intergenic 25.0%
! CATCTGATTGTAATTGTTTA+AGG + chr1_3:6312282-6312301 Msa0099940:intron 25.0%
!!! TTAAGAACTTGTTAATGATG+GGG + chr1_3:6312385-6312404 Msa0099940:CDS 25.0%
! AAAGAAAAATAAAGTCGAAC+TGG + chr1_3:6312861-6312880 Msa0099940:intron 25.0%
! ATCTTATGAAAACAACGTAT+AGG - chr1_3:6312897-6312916 None:intergenic 25.0%
! TATAAGCTGAAAACAACTTA+TGG + chr1_3:6312936-6312955 Msa0099940:intron 25.0%
!! TATTTGTTGAATGGAATCAT+TGG + chr1_3:6313048-6313067 Msa0099940:intron 25.0%
! AAAATATGTAATTGCGTGTT+TGG + chr1_3:6313134-6313153 Msa0099940:intron 25.0%
! TTTCAAGAATTGTGAAAAGA+TGG + chr1_3:6313288-6313307 Msa0099940:intron 25.0%
! ATTGATAAACTCTTGATTCT+AGG + chr1_3:6313578-6313597 Msa0099940:intron 25.0%
! TTGATAAACTCTTGATTCTA+GGG + chr1_3:6313579-6313598 Msa0099940:intron 25.0%
! ACAAAACCATGTATATACTT+AGG - chr1_3:6313625-6313644 None:intergenic 25.0%
! GAACCAAAACTTAAAATTTG+AGG - chr1_3:6313651-6313670 None:intergenic 25.0%
!!! TAAGTTTTGGTTCATTTTGT+TGG + chr1_3:6313658-6313677 Msa0099940:intron 25.0%
! ATTCTCAAGTTTGAAAATCT+TGG + chr1_3:6313762-6313781 Msa0099940:intron 25.0%
!! TTCAGAGGACTAAAATATTT+TGG - chr1_3:6313962-6313981 None:intergenic 25.0%
!!! CGTTTTAATTAATGTTTCAG+AGG - chr1_3:6313977-6313996 None:intergenic 25.0%
!! ACATAATTTTACTGTCTTCA+AGG + chr1_3:6314002-6314021 Msa0099940:intron 25.0%
!!! CTGGTTTTTTTTTTTTTTCC+TGG - chr1_3:6314135-6314154 None:intergenic 25.0%
! GGAAAAAAAAAAAAAACCAG+AGG + chr1_3:6314135-6314154 Msa0099940:intron 25.0%
!! TTGCTTTATTGAGATGAAAT+TGG + chr1_3:6314192-6314211 Msa0099940:intron 25.0%
! ATTTATACACCAAATGATTG+TGG - chr1_3:6314290-6314309 None:intergenic 25.0%
! ACTTAAAGAAAAGAAACCAA+GGG - chr1_3:6314534-6314553 None:intergenic 25.0%
! AAGACAAAAAACTTAAGAAC+TGG - chr1_3:6314630-6314649 None:intergenic 25.0%
!!! TTAAGTTTTTTGTCTTCTCT+TGG + chr1_3:6314634-6314653 Msa0099940:three_prime_UTR 25.0%
! AATAGCATACTAGAAATGTT+AGG + chr1_3:6314913-6314932 Msa0099940:three_prime_UTR 25.0%
! ATAGCATACTAGAAATGTTA+GGG + chr1_3:6314914-6314933 Msa0099940:three_prime_UTR 25.0%
! TGAAAGAACAATAAGAATTC+GGG - chr1_3:6314971-6314990 None:intergenic 25.0%
! CTGAAAGAACAATAAGAATT+CGG - chr1_3:6314972-6314991 None:intergenic 25.0%
CGATTCAATTCAATGGATAA+AGG + chr1_3:6311732-6311751 Msa0099940:exon 30.0%
CAATTCAATGGATAAAGGAA+AGG + chr1_3:6311737-6311756 Msa0099940:exon 30.0%
TGAATTATCGGAGAAATCAA+CGG - chr1_3:6311793-6311812 None:intergenic 30.0%
CTCAACTGATAATAAACGAA+AGG - chr1_3:6312118-6312137 None:intergenic 30.0%
TGGAGTAGTACTTATTAGAT+CGG - chr1_3:6312234-6312253 None:intergenic 30.0%
ACAAAACAACAAAAAGGAAG+CGG - chr1_3:6312537-6312556 None:intergenic 30.0%
! TGGATGAAATTAGGTTTGTT+TGG + chr1_3:6312772-6312791 Msa0099940:intron 30.0%
ATACATATTAAGACCCTGTT+TGG - chr1_3:6313031-6313050 None:intergenic 30.0%
!! TTGGTTTGTTGTAACTCATT+AGG + chr1_3:6313099-6313118 Msa0099940:intron 30.0%
! CTTGCGATGTTAAATCTTTT+AGG + chr1_3:6313218-6313237 Msa0099940:intron 30.0%
TATCAGCCTAAGTATATACA+TGG + chr1_3:6313616-6313635 Msa0099940:intron 30.0%
! GTTCATTTTGTTGGATAGTT+GGG + chr1_3:6313667-6313686 Msa0099940:intron 30.0%
CTTACTACAAGTAATTTCTG+TGG + chr1_3:6314237-6314256 Msa0099940:intron 30.0%
GTGGTTCATCTATATTATTC+TGG - chr1_3:6314271-6314290 None:intergenic 30.0%
ATAGATGAACCACAATCATT+TGG + chr1_3:6314278-6314297 Msa0099940:intron 30.0%
AATCTACCAATTCTTCACTA+TGG - chr1_3:6314326-6314345 None:intergenic 30.0%
AAATCACAAAAGGATGAAGT+AGG - chr1_3:6314496-6314515 None:intergenic 30.0%
CACTTAAAGAAAAGAAACCA+AGG - chr1_3:6314535-6314554 None:intergenic 30.0%
TACAAACCATGTCTAATCTT+TGG - chr1_3:6314768-6314787 None:intergenic 30.0%
ACATACAAAGAGATACAAAG+AGG - chr1_3:6314827-6314846 None:intergenic 30.0%
CTTTGTATCTCTTTGTATGT+AGG + chr1_3:6314827-6314846 Msa0099940:three_prime_UTR 30.0%
TACTGCAAATCTGATGTAAA+AGG + chr1_3:6314889-6314908 Msa0099940:three_prime_UTR 30.0%
TAGCATACTAGAAATGTTAG+GGG + chr1_3:6314915-6314934 Msa0099940:three_prime_UTR 30.0%
!!! AGGAGAATTTTTTTAGCAGT+GGG + chr1_3:6314938-6314957 Msa0099940:three_prime_UTR 30.0%
TGAAGCAGGTATACAAAATA+TGG + chr1_3:6315042-6315061 Msa0099940:three_prime_UTR 30.0%
AGAATGAGTGAAGAGAAGAA+GGG - chr1_3:6311708-6311727 None:intergenic 35.0%
AAGAATGAGTGAAGAGAAGA+AGG - chr1_3:6311709-6311728 None:intergenic 35.0%
TCTTCAGCGATTCAATTCAA+TGG + chr1_3:6311725-6311744 Msa0099940:exon 35.0%
ATCGCGAGAAGTTGAATTAT+CGG - chr1_3:6311805-6311824 None:intergenic 35.0%
! ATCTTTCTTTTGGCGACTAA+GGG - chr1_3:6311880-6311899 None:intergenic 35.0%
! TGGATTCAGCATCTTTCTTT+TGG - chr1_3:6311890-6311909 None:intergenic 35.0%
AGAAAGATGCTGAATCCAAT+TGG + chr1_3:6311892-6311911 Msa0099940:CDS 35.0%
TGAATCCAATTGGAAATCTC+AGG + chr1_3:6311902-6311921 Msa0099940:CDS 35.0%
ACTGATAATAAACGAAAGGG+AGG - chr1_3:6312114-6312133 None:intergenic 35.0%
ATTGTTGGAAACAGAAAGCT+TGG + chr1_3:6312343-6312362 Msa0099940:intron 35.0%
TTGTTGGAAACAGAAAGCTT+GGG + chr1_3:6312344-6312363 Msa0099940:intron 35.0%
! TAATGATGGGGTTTATGATG+TGG + chr1_3:6312397-6312416 Msa0099940:CDS 35.0%
ACTGTTCACTTGTTTAGCAT+CGG + chr1_3:6312432-6312451 Msa0099940:CDS 35.0%
!! ACTTTTTCCAACACTCTGTA+AGG - chr1_3:6312493-6312512 None:intergenic 35.0%
TTGAATGGAGAGATTCAGTA+AGG - chr1_3:6312662-6312681 None:intergenic 35.0%
CTTGATGTCTATAGATAACG+AGG + chr1_3:6312733-6312752 Msa0099940:intron 35.0%
AAGATATCCTAGTGAGCTTA+TGG + chr1_3:6312912-6312931 Msa0099940:intron 35.0%
CTTATATCCATAAGCTCACT+AGG - chr1_3:6312922-6312941 None:intergenic 35.0%
! GTCAGTCTCATAATTGCTTT+TGG + chr1_3:6312979-6312998 Msa0099940:intron 35.0%
TCAAATAAGTCGATCCAAAC+AGG + chr1_3:6313014-6313033 Msa0099940:intron 35.0%
CAAATAAGTCGATCCAAACA+GGG + chr1_3:6313015-6313034 Msa0099940:intron 35.0%
AACCAAAAGAGAAGAGAACT+GGG - chr1_3:6313085-6313104 None:intergenic 35.0%
AAACCAAAAGAGAAGAGAAC+TGG - chr1_3:6313086-6313105 None:intergenic 35.0%
!!! TCTTTTAGGACCTTTGCAAT+TGG + chr1_3:6313232-6313251 Msa0099940:intron 35.0%
ACCTTACAAAGATGCTAAAG+TGG + chr1_3:6313379-6313398 Msa0099940:CDS 35.0%
TCCACTTTAGCATCTTTGTA+AGG - chr1_3:6313383-6313402 None:intergenic 35.0%
GTATTCATCGCCCTTAATTT+GGG + chr1_3:6313422-6313441 Msa0099940:CDS 35.0%
TAACATGCCTCCCAAATTAA+GGG - chr1_3:6313435-6313454 None:intergenic 35.0%
! GGTTCATTTTGTTGGATAGT+TGG + chr1_3:6313666-6313685 Msa0099940:intron 35.0%
AGGCAGTAACATGAATAACA+GGG - chr1_3:6313812-6313831 None:intergenic 35.0%
! CTTCAAGGTATTATGACAAG+AGG + chr1_3:6314017-6314036 Msa0099940:intron 35.0%
TAACATACAATGCTATGGGT+AGG - chr1_3:6314081-6314100 None:intergenic 35.0%
CATATGCCATAGTGAAGAAT+TGG + chr1_3:6314317-6314336 Msa0099940:intron 35.0%
CCTGAAGATACGAAAAAGTA+AGG - chr1_3:6314565-6314584 None:intergenic 35.0%
!!! CCTTACTTTTTCGTATCTTC+AGG + chr1_3:6314562-6314581 Msa0099940:intron 35.0%
!!! TACTTTTTCGTATCTTCAGG+AGG + chr1_3:6314565-6314584 Msa0099940:intron 35.0%
!!! AGTTTTTTGTCTTCTCTTGG+AGG + chr1_3:6314637-6314656 Msa0099940:three_prime_UTR 35.0%
TCTTCTCTTGGAGGAATTTA+AGG + chr1_3:6314646-6314665 Msa0099940:three_prime_UTR 35.0%
CTTGGAGGAATTTAAGGATT+TGG + chr1_3:6314652-6314671 Msa0099940:three_prime_UTR 35.0%
GTACTGTTAGCATGTTGTAA+TGG + chr1_3:6314674-6314693 Msa0099940:three_prime_UTR 35.0%
TGGTCACAAATGATCTCATT+AGG + chr1_3:6314694-6314713 Msa0099940:three_prime_UTR 35.0%
!!! GAGGAGAATTTTTTTAGCAG+TGG + chr1_3:6314937-6314956 Msa0099940:three_prime_UTR 35.0%
!!! GGAGAATTTTTTTAGCAGTG+GGG + chr1_3:6314939-6314958 Msa0099940:three_prime_UTR 35.0%
TTGTATACCTGCTTCACAAT+GGG - chr1_3:6315038-6315057 None:intergenic 35.0%
TTTGTATACCTGCTTCACAA+TGG - chr1_3:6315039-6315058 None:intergenic 35.0%
! GATAAAGGAAAGGGTGTGAT+GGG + chr1_3:6311747-6311766 Msa0099940:CDS 40.0%
! CATCTTTCTTTTGGCGACTA+AGG - chr1_3:6311881-6311900 None:intergenic 40.0%
GCATACCTGAGATTTCCAAT+TGG - chr1_3:6311910-6311929 None:intergenic 40.0%
ATCAGTTGAGATGTGAGATG+TGG + chr1_3:6312128-6312147 Msa0099940:intron 40.0%
TCAGTTGAGATGTGAGATGT+GGG + chr1_3:6312129-6312148 Msa0099940:intron 40.0%
! ACACTCTGTAAGGCACTTAT+GGG - chr1_3:6312483-6312502 None:intergenic 40.0%
! AACACTCTGTAAGGCACTTA+TGG - chr1_3:6312484-6312503 None:intergenic 40.0%
ATAAGTGCCTTACAGAGTGT+TGG + chr1_3:6312483-6312502 Msa0099940:intron 40.0%
! ATCCCAGTTCTCTTCTCTTT+TGG + chr1_3:6313080-6313099 Msa0099940:intron 40.0%
ATCCACAGTTCCAATTGCAA+AGG - chr1_3:6313245-6313264 None:intergenic 40.0%
ATGCTAAAGTGGAGCTTCTT+GGG + chr1_3:6313390-6313409 Msa0099940:CDS 40.0%
GGTATTCATCGCCCTTAATT+TGG + chr1_3:6313421-6313440 Msa0099940:CDS 40.0%
GTAACATGCCTCCCAAATTA+AGG - chr1_3:6313436-6313455 None:intergenic 40.0%
! AATTTGGGAGGCATGTTACT+AGG + chr1_3:6313437-6313456 Msa0099940:CDS 40.0%
CATGTTACTAGGTGTTTGGA+AGG + chr1_3:6313448-6313467 Msa0099940:CDS 40.0%
AGGCTGATAAATTCACTGCT+AGG - chr1_3:6313605-6313624 None:intergenic 40.0%
GAGGCAGTAACATGAATAAC+AGG - chr1_3:6313813-6313832 None:intergenic 40.0%
AATGAATTGAGCTGCAGAAG+AGG - chr1_3:6313832-6313851 None:intergenic 40.0%
TCTTCTGCAGCTCAATTCAT+TGG + chr1_3:6313831-6313850 Msa0099940:intron 40.0%
CTTCTGCAGCTCAATTCATT+GGG + chr1_3:6313832-6313851 Msa0099940:intron 40.0%
AAAGAAAATCCAACCTGAGC+AGG - chr1_3:6313901-6313920 None:intergenic 40.0%
AAGCATGTAATCATTGCCTC+TGG - chr1_3:6314154-6314173 None:intergenic 40.0%
CAGCTCATGGAAATCACAAA+AGG - chr1_3:6314506-6314525 None:intergenic 40.0%
! TTTTTCGTATCTTCAGGAGG+TGG + chr1_3:6314568-6314587 Msa0099940:intron 40.0%
! CTTAAGAACTGGAGCATCAA+CGG - chr1_3:6314619-6314638 None:intergenic 40.0%
CAGTCACCAAAGATTAGACA+TGG + chr1_3:6314759-6314778 Msa0099940:three_prime_UTR 40.0%
CATACTAGAAATGTTAGGGG+AGG + chr1_3:6314918-6314937 Msa0099940:three_prime_UTR 40.0%
! GGATAAAGGAAAGGGTGTGA+TGG + chr1_3:6311746-6311765 Msa0099940:CDS 45.0%
GGTAGAATCGTCTTGATCGA+GGG - chr1_3:6311859-6311878 None:intergenic 45.0%
CTCAACTCATTGATGCCGAA+CGG + chr1_3:6312198-6312217 Msa0099940:intron 45.0%
TCAACTCATTGATGCCGAAC+GGG + chr1_3:6312199-6312218 Msa0099940:intron 45.0%
ATCGGTCAATCATTCCCGTT+CGG - chr1_3:6312216-6312235 None:intergenic 45.0%
GATGGGGTTTATGATGTGGA+TGG + chr1_3:6312401-6312420 Msa0099940:CDS 45.0%
GTATCACCTTCTCAGCTCTT+TGG + chr1_3:6312454-6312473 Msa0099940:intron 45.0%
CTAGGTGTGTGAGTTTCAAG+TGG - chr1_3:6312582-6312601 None:intergenic 45.0%
CACTTGAAACTCACACACCT+AGG + chr1_3:6312580-6312599 Msa0099940:intron 45.0%
ATCTTCACCTGAGATCTCCT+AGG - chr1_3:6312600-6312619 None:intergenic 45.0%
GACCTTTGCAATTGGAACTG+TGG + chr1_3:6313240-6313259 Msa0099940:intron 45.0%
GATGCTAAAGTGGAGCTTCT+TGG + chr1_3:6313389-6313408 Msa0099940:CDS 45.0%
AGGGCGATGAATACCAACTT+AGG - chr1_3:6313416-6313435 None:intergenic 45.0%
! TTCATCGCCCTTAATTTGGG+AGG + chr1_3:6313425-6313444 Msa0099940:CDS 45.0%
GAGGCATGTTACTAGGTGTT+TGG + chr1_3:6313444-6313463 Msa0099940:CDS 45.0%
GCAACAATATCTGTAGACCC+AGG + chr1_3:6314114-6314133 Msa0099940:intron 45.0%
! TCTTTGGTGACTGCAAGTAC+TGG - chr1_3:6314752-6314771 None:intergenic 45.0%
CTTCACAATGGGAAGGTTAC+AGG - chr1_3:6315027-6315046 None:intergenic 45.0%
TAACCTTCCCATTGTGAAGC+AGG + chr1_3:6315028-6315047 Msa0099940:three_prime_UTR 45.0%
ATACCTGCTTCACAATGGGA+AGG - chr1_3:6315034-6315053 None:intergenic 45.0%
! AAGGGTGTGATGGGATCTTC+TGG + chr1_3:6311756-6311775 Msa0099940:CDS 50.0%
TGGGATCTTCTGGACGAAGA+TGG + chr1_3:6311766-6311785 Msa0099940:CDS 50.0%
GGGATCTTCTGGACGAAGAT+GGG + chr1_3:6311767-6311786 Msa0099940:CDS 50.0%
CGCGATATTATCGATCCTCC+CGG + chr1_3:6311819-6311838 Msa0099940:CDS 50.0%
GGGTAGAATCGTCTTGATCG+AGG - chr1_3:6311860-6311879 None:intergenic 50.0%
GAAAGCTTGGGAAGTTGCAC+AGG + chr1_3:6312356-6312375 Msa0099940:intron 50.0%
GGGTTTATGATGTGGATGGC+TGG + chr1_3:6312405-6312424 Msa0099940:CDS 50.0%
TCACACACCTAGGAGATCTC+AGG + chr1_3:6312590-6312609 Msa0099940:intron 50.0%
TTCCTACCCACACATCAGAC+TGG + chr1_3:6313860-6313879 Msa0099940:CDS 50.0%
TCCTACCCACACATCAGACT+GGG + chr1_3:6313861-6313880 Msa0099940:CDS 50.0%
TGACACCCAGTCTGATGTGT+GGG - chr1_3:6313869-6313888 None:intergenic 50.0%
ATGACACCCAGTCTGATGTG+TGG - chr1_3:6313870-6313889 None:intergenic 50.0%
GGGTTGCCAAAGAGCTGAGA+AGG - chr1_3:6312463-6312482 None:intergenic 55.0%
GGAGCTTCTTGGGCCTAAGT+TGG + chr1_3:6313400-6313419 Msa0099940:CDS 55.0%
ACCCAGTCTGATGTGTGGGT+AGG - chr1_3:6313865-6313884 None:intergenic 55.0%
GTCATCCTTAGCACCTGCTC+AGG + chr1_3:6313885-6313904 Msa0099940:CDS 55.0%
TCCTTAGCACCTGCTCAGGT+TGG + chr1_3:6313889-6313908 Msa0099940:intron 55.0%
TCCAACCTGAGCAGGTGCTA+AGG - chr1_3:6313893-6313912 None:intergenic 55.0%
TCCATGAGCTGCAACACCCT+TGG + chr1_3:6314515-6314534 Msa0099940:intron 55.0%
!! ACCAAGGGTGTTGCAGCTCA+TGG - chr1_3:6314519-6314538 None:intergenic 55.0%
! CTTCAGGAGGTGGAGTACTC+AGG + chr1_3:6314578-6314597 Msa0099940:intron 55.0%
! AGGAGGTGGAGTACTCAGGT+GGG + chr1_3:6314582-6314601 Msa0099940:intron 55.0%
! AGGGAAGCGCGTGAGAAACC+GGG - chr1_3:6311840-6311859 None:intergenic 60.0%
! GAGGGAAGCGCGTGAGAAAC+CGG - chr1_3:6311841-6311860 None:intergenic 60.0%
! CAGGAGGTGGAGTACTCAGG+TGG + chr1_3:6314581-6314600 Msa0099940:intron 60.0%
! GGAGGTGGAGTACTCAGGTG+GGG + chr1_3:6314583-6314602 Msa0099940:intron 60.0%
! GAGGTGGAGTACTCAGGTGG+GGG + chr1_3:6314584-6314603 Msa0099940:CDS 60.0%
GAAGCGCGTGAGAAACCGGG+AGG - chr1_3:6311837-6311856 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
chr1_3 gene 6311643 6315069 6311643 ID=Msa0099940;Name=Msa0099940
chr1_3 mRNA 6311643 6315069 6311643 ID=Msa0099940-mRNA-1;Parent=Msa0099940;Name=Msa0099940-mRNA-1;_AED=0.08;_eAED=0.08;_QI=101|0.75|0.8|1|1|1|5|447|159
chr1_3 exon 6311643 6311923 6311643 ID=Msa0099940-mRNA-1:exon:2369;Parent=Msa0099940-mRNA-1
chr1_3 exon 6312357 6312453 6312357 ID=Msa0099940-mRNA-1:exon:2370;Parent=Msa0099940-mRNA-1
chr1_3 exon 6313372 6313469 6313372 ID=Msa0099940-mRNA-1:exon:2371;Parent=Msa0099940-mRNA-1
chr1_3 exon 6313841 6313906 6313841 ID=Msa0099940-mRNA-1:exon:2372;Parent=Msa0099940-mRNA-1
chr1_3 exon 6314584 6315069 6314584 ID=Msa0099940-mRNA-1:exon:2373;Parent=Msa0099940-mRNA-1
chr1_3 five_prime_UTR 6311643 6311743 6311643 ID=Msa0099940-mRNA-1:five_prime_utr;Parent=Msa0099940-mRNA-1
chr1_3 CDS 6311744 6311923 6311744 ID=Msa0099940-mRNA-1:cds;Parent=Msa0099940-mRNA-1
chr1_3 CDS 6312357 6312453 6312357 ID=Msa0099940-mRNA-1:cds;Parent=Msa0099940-mRNA-1
chr1_3 CDS 6313372 6313469 6313372 ID=Msa0099940-mRNA-1:cds;Parent=Msa0099940-mRNA-1
chr1_3 CDS 6313841 6313906 6313841 ID=Msa0099940-mRNA-1:cds;Parent=Msa0099940-mRNA-1
chr1_3 CDS 6314584 6314622 6314584 ID=Msa0099940-mRNA-1:cds;Parent=Msa0099940-mRNA-1
chr1_3 three_prime_UTR 6314623 6315069 6314623 ID=Msa0099940-mRNA-1:three_prime_utr;Parent=Msa0099940-mRNA-1
Gene Sequence

>Msa0099940

ATGGATAAAGGAAAGGGTGTGATGGGATCTTCTGGACGAAGATGGGCCGTTGATTTCTCCGATAATTCAACTTCTCGCGATATTATCGATCCTCCCGGTTTCTCACGCGCTTCCCTCGATCAAGACGATTCTACCCTTAGTCGCCAAAAGAAAGATGCTGAATCCAATTGGAAATCTCAGAAAGCTTGGGAAGTTGCACAGGCACCATTTAAGAACTTGTTAATGATGGGGTTTATGATGTGGATGGCTGGTAATACTGTTCACTTGTTTAGCATCGTGTTTGAACCTTACAAAGATGCTAAAGTGGAGCTTCTTGGGCCTAAGTTGGTATTCATCGCCCTTAATTTGGGAGGCATGTTACTAGGTGTTTGGAAGCTCAATTCATTGGGACTGCTTCCTACCCACACATCAGACTGGGTGTCATCCTTAGCACCTGCTCAGGAGGTGGAGTACTCAGGTGGGGGTCTAAATTTCCGTTGA
Protein sequence

>Msa0099940

MDKGKGVMGSSGRRWAVDFSDNSTSRDIIDPPGFSRASLDQDDSTLSRQKKDAESNWKSQKAWEVAQAPFKNLLMMGFMMWMAGNTVHLFSIVFEPYKDAKVELLGPKLVFIALNLGGMLLGVWKLNSLGLLPTHTSDWVSSLAPAQEVEYSGGGLNFR*