AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013926.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013926.01.T01 MTR_7g021800 98.726 157 2 0 141 297 2 158 3.65e-115 328
MsG0380013926.01.T01 MTR_4g035040 98.726 157 2 0 141 297 2 158 3.65e-115 328
MsG0380013926.01.T01 MTR_0002s0630 86.250 160 22 0 138 297 159 318 9.05e-102 301
MsG0380013926.01.T01 MTR_0002s0630 93.151 73 5 0 1 73 85 157 7.41e-41 144
MsG0380013926.01.T01 MTR_7g021790 98.582 141 2 0 1 141 85 225 5.68e-100 293
MsG0380013926.01.T01 MTR_4g051225 98.582 141 2 0 1 141 85 225 6.34e-100 293
MsG0380013926.01.T01 MTR_3g104310 51.316 76 36 1 1 76 127 201 4.09e-22 92.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013926.01.T01 ATCG00420 88.535 157 18 0 141 297 2 158 7.83e-104 300
MsG0380013926.01.T01 ATCG00430 84.733 131 20 0 1 131 85 215 8.19e-76 231
MsG0380013926.01.T01 AT5G11770 52.632 76 35 1 1 76 135 209 4.31e-22 92.4

Find 54 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCATAGCAATAACATATTT+TGG 0.145578 3:-48431728 None:intergenic
CGGAATAGTTCATAGATCTT+TGG 0.225646 3:+48432261 MsG0380013926.01.T01:CDS
GGCCATCCTATCCAACTTTC+GGG 0.254679 3:-48432625 None:intergenic
TCTATAACGGCTTCCGGTTT+AGG 0.271031 3:-48431854 None:intergenic
GGAATAGTTCATAGATCTTT+GGG 0.328701 3:+48432262 MsG0380013926.01.T01:CDS
CGATTCTTATAGTACTGTTC+GGG 0.334412 3:+48431784 MsG0380013926.01.T01:CDS
AGGCCATCCTATCCAACTTT+CGG 0.340000 3:-48432626 None:intergenic
TTCCAAACCCAGAAAATAGA+AGG 0.366444 3:-48432517 None:intergenic
ATGGGAGCCTGTACAATTAC+AGG 0.381263 3:+48431746 MsG0380013926.01.T01:CDS
ATAGCATCTATAACGGCTTC+CGG 0.383241 3:-48431860 None:intergenic
TAATCCTTGATTATAATTGC+CGG 0.397390 3:-48431999 None:intergenic
TGCAGGGTCATTTGTCTGCT+TGG 0.409987 3:+48432227 MsG0380013926.01.T01:intron
AGGGAATCTTATGATATGTT+AGG 0.415137 3:+48432559 MsG0380013926.01.T01:CDS
GCCAGGCTGTCCACCTAAAC+CGG 0.419334 3:+48431841 MsG0380013926.01.T01:CDS
CCGATTCTTATAGTACTGTT+CGG 0.421214 3:+48431783 MsG0380013926.01.T01:CDS
TTTGTTATCAACGAGAGAAT+AGG 0.424726 3:+48431930 MsG0380013926.01.T01:CDS
ACCAAAATATGTTATTGCTA+TGG 0.431305 3:+48431727 MsG0380013926.01.T01:CDS
TTTGTAAAGTCTCTATTCCT+TGG 0.436961 3:-48432294 None:intergenic
TGCTACATCATAGGCACATT+GGG 0.447727 3:-48432383 None:intergenic
TTATAGTACTGTTCGGGGCG+TGG 0.449303 3:+48431790 MsG0380013926.01.T01:CDS
TCCTCCTGGTGCTACATCAT+AGG 0.453068 3:-48432392 None:intergenic
CCAAAATATGTTATTGCTAT+GGG 0.459012 3:+48431728 MsG0380013926.01.T01:CDS
CCTGTGGATGTCTATTTGCC+AGG 0.459278 3:+48431824 MsG0380013926.01.T01:CDS
TACAAATAAAGCCCGAGGAT+TGG 0.464528 3:+48432311 MsG0380013926.01.T01:CDS
ACGAACCACAAATTTCATCT+TGG 0.467272 3:+48431962 MsG0380013926.01.T01:CDS
CAGAAAATAGAAGGAATTCT+CGG 0.478109 3:-48432508 None:intergenic
TCCGGTTTAGGTGGACAGCC+TGG 0.487255 3:-48431842 None:intergenic
AGCAATCGAATGCCAATCCT+CGG 0.513209 3:-48432323 None:intergenic
TGCCCGAAAGTTGGATAGGA+TGG 0.516198 3:+48432623 MsG0380013926.01.T01:CDS
CATACCGGCAATTATAATCA+AGG 0.517342 3:+48431995 MsG0380013926.01.T01:CDS
TCATATAATCGAACTAAAGA+AGG 0.525955 3:-48431692 None:intergenic
CATCCCTCCTGTAATTGTAC+AGG 0.526031 3:-48431753 None:intergenic
CCGAACAGTACTATAAGAAT+CGG 0.541435 3:-48431783 None:intergenic
TGCGTCCAAGATGAAATTTG+TGG 0.543518 3:-48431967 None:intergenic
GTGCTACATCATAGGCACAT+TGG 0.546406 3:-48432384 None:intergenic
GTTATCTCTGAAATAGATGA+TGG 0.552200 3:-48432031 None:intergenic
TTAATGCCCGAAAGTTGGAT+AGG 0.556642 3:+48432619 MsG0380013926.01.T01:CDS
ACACTAGCTAATAGTCCTCC+TGG 0.563367 3:-48432406 None:intergenic
ATAACGGCTTCCGGTTTAGG+TGG 0.571411 3:-48431851 None:intergenic
GCAATCGAATGCCAATCCTC+GGG 0.577805 3:-48432322 None:intergenic
CCTGGCAAATAGACATCCAC+AGG 0.589717 3:-48431824 None:intergenic
TGTGCCTATGATGTAGCACC+AGG 0.591745 3:+48432388 MsG0380013926.01.T01:CDS
GCGATATAATCTTTACGCAA+AGG 0.602633 3:-48432646 None:intergenic
CTTGGACGCAGTACTCATAC+CGG 0.607678 3:+48431980 MsG0380013926.01.T01:CDS
GCATAAAAGTATTTGCCCCA+AGG 0.613297 3:+48432479 MsG0380013926.01.T01:CDS
TAGTTTAGATCAACCCGAAG+AGG 0.615869 3:+48432453 MsG0380013926.01.T01:CDS
ATTAAAATACGTTTCAGACG+CGG 0.619896 3:-48432601 None:intergenic
CGTGGATAAGCTAATTCCTG+TGG 0.619980 3:+48431808 MsG0380013926.01.T01:CDS
GACTTTACAAATAAAGCCCG+AGG 0.624427 3:+48432306 MsG0380013926.01.T01:CDS
TCTGCTTGGCTAGTCAAACA+CGG 0.639180 3:+48432241 MsG0380013926.01.T01:CDS
GGAGCCTGTACAATTACAGG+AGG 0.664070 3:+48431749 MsG0380013926.01.T01:CDS
GATTCTTATAGTACTGTTCG+GGG 0.694011 3:+48431785 MsG0380013926.01.T01:CDS
GCCTATGATGTAGCACCAGG+AGG 0.695694 3:+48432391 MsG0380013926.01.T01:CDS
GAGCCTGTACAATTACAGGA+GGG 0.718983 3:+48431750 MsG0380013926.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCCTGTATTTCATAAAAAT+TGG - Chr3:48432674-48432693 None:intergenic 20.0%
!! TCCTGTATTTCATAAAAATT+GGG - Chr3:48432673-48432692 None:intergenic 20.0%
!!! CTTATTGTATTTTGTACAAA+AGG - Chr3:48432128-48432147 None:intergenic 20.0%
!!! GCTGTTATTTTATATGTATA+TGG + Chr3:48432343-48432362 MsG0380013926.01.T01:CDS 20.0%
!!! TTTTGTTATAGCATCTATAA+CGG - Chr3:48431870-48431889 None:intergenic 20.0%
! AACGAAAAAGTGAATTAAAC+AGG + Chr3:48432100-48432119 MsG0380013926.01.T01:intron 25.0%
! ACCAAAATATGTTATTGCTA+TGG + Chr3:48431727-48431746 MsG0380013926.01.T01:CDS 25.0%
! ATATTTGAAAAATGTGTCAG+AGG - Chr3:48432056-48432075 None:intergenic 25.0%
! CCAAAATATGTTATTGCTAT+GGG + Chr3:48431728-48431747 MsG0380013926.01.T01:CDS 25.0%
! CCAAACTATATAAAAAAAGC+AGG + Chr3:48432189-48432208 MsG0380013926.01.T01:intron 25.0%
! CCTGTATTTCATAAAAATTG+GGG - Chr3:48432672-48432691 None:intergenic 25.0%
! CTGTATTTCATAAAAATTGG+GGG - Chr3:48432671-48432690 None:intergenic 25.0%
! GAGAAGTAAAAAAAAATGCA+GGG + Chr3:48432211-48432230 MsG0380013926.01.T01:intron 25.0%
! TAATCCTTGATTATAATTGC+CGG - Chr3:48432002-48432021 None:intergenic 25.0%
! TCATATAATCGAACTAAAGA+AGG - Chr3:48431695-48431714 None:intergenic 25.0%
!!! AGCAATAACATATTTTGGTT+CGG - Chr3:48431726-48431745 None:intergenic 25.0%
!!! CCTGCTTTTTTTATATAGTT+TGG - Chr3:48432192-48432211 None:intergenic 25.0%
!!! TAATTCACTTTTTCGTTTGT+CGG - Chr3:48432097-48432116 None:intergenic 25.0%
AGGGAATCTTATGATATGTT+AGG + Chr3:48432559-48432578 MsG0380013926.01.T01:CDS 30.0%
ATTAAAATACGTTTCAGACG+CGG - Chr3:48432604-48432623 None:intergenic 30.0%
CAGAAAATAGAAGGAATTCT+CGG - Chr3:48432511-48432530 None:intergenic 30.0%
GGAATAGTTCATAGATCTTT+GGG + Chr3:48432262-48432281 MsG0380013926.01.T01:CDS 30.0%
GGAGAAGTAAAAAAAAATGC+AGG + Chr3:48432210-48432229 MsG0380013926.01.T01:intron 30.0%
TTTGTAAAGTCTCTATTCCT+TGG - Chr3:48432297-48432316 None:intergenic 30.0%
! CCCATAGCAATAACATATTT+TGG - Chr3:48431731-48431750 None:intergenic 30.0%
! CCCCAATTTTTATGAAATAC+AGG + Chr3:48432669-48432688 MsG0380013926.01.T01:CDS 30.0%
! GAGAATTCCTTCTATTTTCT+GGG + Chr3:48432510-48432529 MsG0380013926.01.T01:CDS 30.0%
! TACTTTTATGCATACCTCTT+CGG - Chr3:48432470-48432489 None:intergenic 30.0%
! TTTGTTATCAACGAGAGAAT+AGG + Chr3:48431930-48431949 MsG0380013926.01.T01:CDS 30.0%
!! GTTATCTCTGAAATAGATGA+TGG - Chr3:48432034-48432053 None:intergenic 30.0%
!!! AAAGTGCTGATTTTCAAGAA+AGG + Chr3:48432539-48432558 MsG0380013926.01.T01:CDS 30.0%
!!! AAGTGCTGATTTTCAAGAAA+GGG + Chr3:48432540-48432559 MsG0380013926.01.T01:CDS 30.0%
!!! GCAATAACATATTTTGGTTC+GGG - Chr3:48431725-48431744 None:intergenic 30.0%
ACGAACCACAAATTTCATCT+TGG + Chr3:48431962-48431981 MsG0380013926.01.T01:CDS 35.0%
CATACCGGCAATTATAATCA+AGG + Chr3:48431995-48432014 MsG0380013926.01.T01:CDS 35.0%
CCGAACAGTACTATAAGAAT+CGG - Chr3:48431786-48431805 None:intergenic 35.0%
CCGATTCTTATAGTACTGTT+CGG + Chr3:48431783-48431802 MsG0380013926.01.T01:CDS 35.0%
CGATTCTTATAGTACTGTTC+GGG + Chr3:48431784-48431803 MsG0380013926.01.T01:CDS 35.0%
CGGAATAGTTCATAGATCTT+TGG + Chr3:48432261-48432280 MsG0380013926.01.T01:CDS 35.0%
GATTCTTATAGTACTGTTCG+GGG + Chr3:48431785-48431804 MsG0380013926.01.T01:CDS 35.0%
GCGATATAATCTTTACGCAA+AGG - Chr3:48432649-48432668 None:intergenic 35.0%
TTCCAAACCCAGAAAATAGA+AGG - Chr3:48432520-48432539 None:intergenic 35.0%
! ACTTTTATGCATACCTCTTC+GGG - Chr3:48432469-48432488 None:intergenic 35.0%
! CGAGAATTCCTTCTATTTTC+TGG + Chr3:48432509-48432528 MsG0380013926.01.T01:CDS 35.0%
! TTCCTTCTATTTTCTGGGTT+TGG + Chr3:48432515-48432534 MsG0380013926.01.T01:CDS 35.0%
!!! GTATTTTAATGCCCGAAAGT+TGG + Chr3:48432614-48432633 MsG0380013926.01.T01:CDS 35.0%
!!! TCTTTGGGTTTTGATTACCA+AGG + Chr3:48432277-48432296 MsG0380013926.01.T01:CDS 35.0%
ATAGCATCTATAACGGCTTC+CGG - Chr3:48431863-48431882 None:intergenic 40.0%
GACTTTACAAATAAAGCCCG+AGG + Chr3:48432306-48432325 MsG0380013926.01.T01:CDS 40.0%
TACAAATAAAGCCCGAGGAT+TGG + Chr3:48432311-48432330 MsG0380013926.01.T01:CDS 40.0%
TAGTTTAGATCAACCCGAAG+AGG + Chr3:48432453-48432472 MsG0380013926.01.T01:CDS 40.0%
TGCGTCCAAGATGAAATTTG+TGG - Chr3:48431970-48431989 None:intergenic 40.0%
TGCTACATCATAGGCACATT+GGG - Chr3:48432386-48432405 None:intergenic 40.0%
TTAATGCCCGAAAGTTGGAT+AGG + Chr3:48432619-48432638 MsG0380013926.01.T01:CDS 40.0%
! AATTCTCGGATTTTGCCTTG+GGG - Chr3:48432497-48432516 None:intergenic 40.0%
! GAATTCTCGGATTTTGCCTT+GGG - Chr3:48432498-48432517 None:intergenic 40.0%
!! GCATAAAAGTATTTGCCCCA+AGG + Chr3:48432479-48432498 MsG0380013926.01.T01:CDS 40.0%
!!! TTCACTTTTTCGTTTGTCGG+AGG - Chr3:48432094-48432113 None:intergenic 40.0%
ACACTAGCTAATAGTCCTCC+TGG - Chr3:48432409-48432428 None:intergenic 45.0%
AGCAATCGAATGCCAATCCT+CGG - Chr3:48432326-48432345 None:intergenic 45.0%
AGGCCATCCTATCCAACTTT+CGG - Chr3:48432629-48432648 None:intergenic 45.0%
ATGGGAGCCTGTACAATTAC+AGG + Chr3:48431746-48431765 MsG0380013926.01.T01:CDS 45.0%
CATCCCTCCTGTAATTGTAC+AGG - Chr3:48431756-48431775 None:intergenic 45.0%
CGTGGATAAGCTAATTCCTG+TGG + Chr3:48431808-48431827 MsG0380013926.01.T01:CDS 45.0%
GAGCCTGTACAATTACAGGA+GGG + Chr3:48431750-48431769 MsG0380013926.01.T01:CDS 45.0%
GTGCTACATCATAGGCACAT+TGG - Chr3:48432387-48432406 None:intergenic 45.0%
TCTATAACGGCTTCCGGTTT+AGG - Chr3:48431857-48431876 None:intergenic 45.0%
! GGAATTCTCGGATTTTGCCT+TGG - Chr3:48432499-48432518 None:intergenic 45.0%
! TCTGCTTGGCTAGTCAAACA+CGG + Chr3:48432241-48432260 MsG0380013926.01.T01:CDS 45.0%
ATAACGGCTTCCGGTTTAGG+TGG - Chr3:48431854-48431873 None:intergenic 50.0%
CCTGGCAAATAGACATCCAC+AGG - Chr3:48431827-48431846 None:intergenic 50.0%
CCTGTGGATGTCTATTTGCC+AGG + Chr3:48431824-48431843 MsG0380013926.01.T01:CDS 50.0%
CTTGGACGCAGTACTCATAC+CGG + Chr3:48431980-48431999 MsG0380013926.01.T01:CDS 50.0%
GCAATCGAATGCCAATCCTC+GGG - Chr3:48432325-48432344 None:intergenic 50.0%
GGAGCCTGTACAATTACAGG+AGG + Chr3:48431749-48431768 MsG0380013926.01.T01:CDS 50.0%
GGCCATCCTATCCAACTTTC+GGG - Chr3:48432628-48432647 None:intergenic 50.0%
TGCAGGGTCATTTGTCTGCT+TGG + Chr3:48432227-48432246 MsG0380013926.01.T01:intron 50.0%
TGCCCGAAAGTTGGATAGGA+TGG + Chr3:48432623-48432642 MsG0380013926.01.T01:CDS 50.0%
TGTGCCTATGATGTAGCACC+AGG + Chr3:48432388-48432407 MsG0380013926.01.T01:CDS 50.0%
TTATAGTACTGTTCGGGGCG+TGG + Chr3:48431790-48431809 MsG0380013926.01.T01:CDS 50.0%
!! TCCTCCTGGTGCTACATCAT+AGG - Chr3:48432395-48432414 None:intergenic 50.0%
GCCTATGATGTAGCACCAGG+AGG + Chr3:48432391-48432410 MsG0380013926.01.T01:CDS 55.0%
GCCAGGCTGTCCACCTAAAC+CGG + Chr3:48431841-48431860 MsG0380013926.01.T01:CDS 60.0%
TCCGGTTTAGGTGGACAGCC+TGG - Chr3:48431845-48431864 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48431686 48432702 48431686 ID=MsG0380013926.01;Name=MsG0380013926.01
Chr3 mRNA 48431686 48432702 48431686 ID=MsG0380013926.01.T01;Parent=MsG0380013926.01;Name=MsG0380013926.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|297
Chr3 exon 48431686 48432108 48431686 ID=MsG0380013926.01.T01:exon:8494;Parent=MsG0380013926.01.T01
Chr3 exon 48432232 48432702 48432232 ID=MsG0380013926.01.T01:exon:8495;Parent=MsG0380013926.01.T01
Chr3 CDS 48431686 48432108 48431686 ID=MsG0380013926.01.T01:cds;Parent=MsG0380013926.01.T01
Chr3 CDS 48432232 48432702 48432232 ID=MsG0380013926.01.T01:cds;Parent=MsG0380013926.01.T01
Gene Sequence

>MsG0380013926.01.T01

ATGGCTCCTTCTTTAGTTCGATTATATGAGCAAATGCCCGAACCAAAATATGTTATTGCTATGGGAGCCTGTACAATTACAGGAGGGATGTTCAGTACCGATTCTTATAGTACTGTTCGGGGCGTGGATAAGCTAATTCCTGTGGATGTCTATTTGCCAGGCTGTCCACCTAAACCGGAAGCCGTTATAGATGCTATAACAAAACTTCGTAAGAAAATATCTCGAGAAATCTATGAAGATCAAATTTGTTATCAACGAGAGAATAGGTGTTTTACTACGAACCACAAATTTCATCTTGGACGCAGTACTCATACCGGCAATTATAATCAAGGATTATTTTATCAACCATCATCTATTTCAGAGATAACCTCTGACACATTTTTCAAATATAAAAAAGTTAACTATCCTCCGACAAACGAAAAAGGTCATTTGTCTGCTTGGCTAGTCAAACACGGAATAGTTCATAGATCTTTGGGTTTTGATTACCAAGGAATAGAGACTTTACAAATAAAGCCCGAGGATTGGCATTCGATTGCTGTTATTTTATATGTATATGGTTACAATTATCTACGTTCCCAATGTGCCTATGATGTAGCACCAGGAGGACTATTAGCTAGTGTCTATCATCTTACGAGAATAGAGTATAGTTTAGATCAACCCGAAGAGGTATGCATAAAAGTATTTGCCCCAAGGCAAAATCCGAGAATTCCTTCTATTTTCTGGGTTTGGAAAAGTGCTGATTTTCAAGAAAGGGAATCTTATGATATGTTAGGAATCTCTTATGATAATCATCCGCGTCTGAAACGTATTTTAATGCCCGAAAGTTGGATAGGATGGCCTTTGCGTAAAGATTATATCGCCCCCAATTTTTATGAAATACAGGATGCTCACTAA

Protein sequence

>MsG0380013926.01.T01

MAPSLVRLYEQMPEPKYVIAMGACTITGGMFSTDSYSTVRGVDKLIPVDVYLPGCPPKPEAVIDAITKLRKKISREIYEDQICYQRENRCFTTNHKFHLGRSTHTGNYNQGLFYQPSSISEITSDTFFKYKKVNYPPTNEKGHLSAWLVKHGIVHRSLGFDYQGIETLQIKPEDWHSIAVILYVYGYNYLRSQCAYDVAPGGLLASVYHLTRIEYSLDQPEEVCIKVFAPRQNPRIPSIFWVWKSADFQERESYDMLGISYDNHPRLKRILMPESWIGWPLRKDYIAPNFYEIQDAH*