AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010599.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010599.01.T01 MTR_2g088270 60.870 161 30 2 1 128 1 161 6.88e-54 174
MsG0280010599.01.T01 MTR_4g048320 48.193 166 49 4 1 129 1 166 9.52e-41 140
MsG0280010599.01.T01 MTR_4g048320 58.333 84 35 0 46 129 25 108 1.95e-27 103
MsG0280010599.01.T01 MTR_4g013305 41.732 127 67 4 8 128 11 136 3.06e-18 79.3
MsG0280010599.01.T01 MTR_3g073370 50.820 61 27 1 68 128 96 153 4.98e-12 62.0
MsG0280010599.01.T01 MTR_3g073370 50.820 61 27 1 68 128 97 154 4.99e-12 62.0
MsG0280010599.01.T01 MTR_4g035490 30.986 142 64 6 16 129 7 142 2.91e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010599.01.T01 AT4G26940 43.046 151 52 3 12 128 16 166 1.97e-32 116
MsG0280010599.01.T01 AT1G05170 43.030 165 57 6 1 128 1 165 3.08e-32 117
MsG0280010599.01.T01 AT1G05170 43.030 165 57 6 1 128 1 165 1.44e-31 115
MsG0280010599.01.T01 AT4G26940 43.046 151 52 3 12 128 16 166 3.47e-31 114
MsG0280010599.01.T01 AT2G32430 40.120 167 61 5 1 128 1 167 9.11e-29 108
MsG0280010599.01.T01 AT1G11730 39.189 148 64 5 1 128 1 142 9.10e-21 86.3
MsG0280010599.01.T01 AT1G77810 35.507 138 70 2 10 128 5 142 1.11e-15 72.4
MsG0280010599.01.T01 AT1G32930 31.973 147 70 2 13 129 12 158 2.97e-15 71.2
MsG0280010599.01.T01 AT1G77810 34.043 141 71 2 10 128 5 145 3.41e-15 70.9
MsG0280010599.01.T01 AT1G22015 32.867 143 67 3 15 128 11 153 2.08e-11 60.1

Find 27 sgRNAs with CRISPR-Local

Find 95 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGACAAGACTATTTCAAATT+TGG 0.194182 2:-72029484 MsG0280010599.01.T01:CDS
GAAGAAATTTGGTGTGATTT+TGG 0.201272 2:+72031254 None:intergenic
CTTTCTGTGTCTGTCTTTGC+AGG 0.212494 2:+72031447 None:intergenic
TCTGTTCACTCTGATTCTTC+TGG 0.287945 2:-72031219 MsG0280010599.01.T01:five_prime_UTR
AGTGCAGAAAAGAAGAAATT+TGG 0.300839 2:+72031243 None:intergenic
ACAGAGTAAGTACTCTGTTT+TGG 0.365386 2:+72031293 None:intergenic
AGAAGGTACCTAATGGTTAT+AGG 0.369031 2:-72029367 MsG0280010599.01.T01:CDS
ATCTTCATATCTTCTGATAC+AGG 0.403107 2:+72029409 None:intergenic
GAGATTCCGTTCGCGCCACT+TGG 0.410674 2:-72029312 MsG0280010599.01.T01:CDS
TGTTAATTCCTATAACCATT+AGG 0.414080 2:+72029359 None:intergenic
AGATAAGTGAATCAACTGTT+AGG 0.471693 2:-72029390 MsG0280010599.01.T01:CDS
TGTATTGGAAGCTTCTGTGC+TGG 0.472699 2:-72031004 MsG0280010599.01.T01:CDS
AGACTATTTCAAATTTGGAA+TGG 0.493341 2:-72029479 MsG0280010599.01.T01:CDS
TGGCATCCAAGTGGCGCGAA+CGG 0.528936 2:+72029306 None:intergenic
TGTTAGGAGAAGGTACCTAA+TGG 0.531626 2:-72029374 MsG0280010599.01.T01:CDS
CCAAAACCATGTTCAAAACA+TGG 0.532445 2:+72031166 None:intergenic
CGCGCCACTTGGATGCCACA+AGG 0.537211 2:-72029301 MsG0280010599.01.T01:CDS
AAGCAAATAAAGCTATGACT+TGG 0.572489 2:-72031087 MsG0280010599.01.T01:exon
TCTTCTTTAGTTGCAAGAGA+AGG 0.590624 2:-72029647 MsG0280010599.01.T01:intron
GTGAATCAACTGTTAGGAGA+AGG 0.596720 2:-72029384 MsG0280010599.01.T01:CDS
ACAAGTATAACGTGGCACAT+AGG 0.604489 2:-72031364 MsG0280010599.01.T01:five_prime_UTR
GCTATGACTTGGAAAAGTAG+AGG 0.624639 2:-72031076 MsG0280010599.01.T01:CDS
GACTTGGAAAAGTAGAGGAG+AGG 0.626837 2:-72031071 MsG0280010599.01.T01:CDS
TGATCGAATTATGAACCTTG+TGG 0.665907 2:+72029286 None:intergenic
GAAGTGAAGCGCGATACGAA+AGG 0.667111 2:-72029625 MsG0280010599.01.T01:CDS
TGAACCTTGTGGCATCCAAG+TGG 0.703947 2:+72029297 None:intergenic
AGCAAAGAACAAGTATAACG+TGG 0.730502 2:-72031372 MsG0280010599.01.T01:five_prime_UTR

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATCACTATTTTATAATAATT+AGG + Chr2:72030653-72030672 None:intergenic 10.0%
!! GAGATATATATATATGATAA+TGG + Chr2:72030492-72030511 None:intergenic 15.0%
!! TTTAAACCAAAAATTGTTAA+TGG + Chr2:72030265-72030284 None:intergenic 15.0%
!!! TTTGATGTTTTATTTAACAT+AGG - Chr2:72030699-72030718 MsG0280010599.01.T01:intron 15.0%
!! AAAAGACCTAAAAAATAAGT+TGG + Chr2:72030679-72030698 None:intergenic 20.0%
!! ACAATTAAATTTAGTTACAG+AGG - Chr2:72030983-72031002 MsG0280010599.01.T01:intron 20.0%
!! CAAAAAAAAAATCTTCTACA+TGG + Chr2:72029613-72029632 None:intergenic 20.0%
!! CAATCATCAATAAAAAAAAC+AGG + Chr2:72029819-72029838 None:intergenic 20.0%
!! CAATTAAATTTAGTTACAGA+GGG - Chr2:72030984-72031003 MsG0280010599.01.T01:intron 20.0%
!! GGAACTAAATTCATAAAAAT+TGG + Chr2:72030009-72030028 None:intergenic 20.0%
!! TCAATGAAAAACAAAGTTTA+AGG + Chr2:72029982-72030001 None:intergenic 20.0%
!!! ATAGATGGATCTTTTTTTTT+GGG - Chr2:72030622-72030641 MsG0280010599.01.T01:intron 20.0%
!!! ATGTTTTATTTAACATAGGA+TGG - Chr2:72030703-72030722 MsG0280010599.01.T01:intron 20.0%
!!! CATAGAAAATCAAGTTTTAT+TGG + Chr2:72030099-72030118 None:intergenic 20.0%
!!! TGTAATATAAGATTTTCATG+TGG + Chr2:72030729-72030748 None:intergenic 20.0%
!!! TTTAAGCCATTAACAATTTT+TGG - Chr2:72030256-72030275 MsG0280010599.01.T01:intron 20.0%
! AAGAAATTTATATGTGTGAC+AGG - Chr2:72030904-72030923 MsG0280010599.01.T01:intron 25.0%
! AATTGAGAGATATTAAGATG+AGG + Chr2:72030359-72030378 None:intergenic 25.0%
! AGACAAGACTATTTCAAATT+TGG - Chr2:72031258-72031277 MsG0280010599.01.T01:five_prime_UTR 25.0%
! AGACTATTTCAAATTTGGAA+TGG - Chr2:72031263-72031282 MsG0280010599.01.T01:five_prime_UTR 25.0%
! TGATTCAAATGAATTAGCAA+TGG + Chr2:72029943-72029962 None:intergenic 25.0%
! TGTTAATTCCTATAACCATT+AGG + Chr2:72031386-72031405 None:intergenic 25.0%
!! TTGAAATGTTGATAGATAGA+TGG - Chr2:72030607-72030626 MsG0280010599.01.T01:intron 25.0%
!!! AGAAAATCAAGTTTTATTGG+TGG + Chr2:72030096-72030115 None:intergenic 25.0%
!!! GATAGATGGATCTTTTTTTT+TGG - Chr2:72030621-72030640 MsG0280010599.01.T01:intron 25.0%
!!! GATAGTCCAACTTATTTTTT+AGG - Chr2:72030670-72030689 MsG0280010599.01.T01:intron 25.0%
!!! TTTTTAAGCTTAGAAAACCA+TGG + Chr2:72029858-72029877 None:intergenic 25.0%
AAAAACACCACAATAACTCA+AGG + Chr2:72030879-72030898 None:intergenic 30.0%
AAGAAAATTCATGTACCTGT+TGG + Chr2:72029774-72029793 None:intergenic 30.0%
AAGCAAATAAAGCTATGACT+TGG - Chr2:72029655-72029674 MsG0280010599.01.T01:intron 30.0%
AATTCATTATTAGGTGTCAG+AGG + Chr2:72030535-72030554 None:intergenic 30.0%
AGATAAGTGAATCAACTGTT+AGG - Chr2:72031352-72031371 MsG0280010599.01.T01:five_prime_UTR 30.0%
AGATAGGGTGAGAAAATTTA+AGG + Chr2:72030067-72030086 None:intergenic 30.0%
AGATGTGCCAATTCATTATT+AGG + Chr2:72030544-72030563 None:intergenic 30.0%
AGTGCAGAAAAGAAGAAATT+TGG + Chr2:72029502-72029521 None:intergenic 30.0%
ATCCATTTCATTTCTTCTGA+TGG + Chr2:72030209-72030228 None:intergenic 30.0%
ATCTTCATATCTTCTGATAC+AGG + Chr2:72031336-72031355 None:intergenic 30.0%
GGAACTAAGCTCATAAAAAT+TGG + Chr2:72030127-72030146 None:intergenic 30.0%
GTTATATGTAACTCACTGTA+TGG + Chr2:72031163-72031182 None:intergenic 30.0%
TATTGGTGGAACATAAGATA+GGG + Chr2:72030082-72030101 None:intergenic 30.0%
TCTGACACCTAATAATGAAT+TGG - Chr2:72030534-72030553 MsG0280010599.01.T01:intron 30.0%
TCTTCTGATGGAACAAAATA+GGG + Chr2:72030197-72030216 None:intergenic 30.0%
TTATTGGTGGAACATAAGAT+AGG + Chr2:72030083-72030102 None:intergenic 30.0%
TTCCATCAGAAGAAATGAAA+TGG - Chr2:72030204-72030223 MsG0280010599.01.T01:intron 30.0%
TTCTTCTGATGGAACAAAAT+AGG + Chr2:72030198-72030217 None:intergenic 30.0%
! GAAGCTTTATGTCTCAAAAA+TGG - Chr2:72029703-72029722 MsG0280010599.01.T01:intron 30.0%
! TGGATCTGAAATGAATTGAT+TGG - Chr2:72030224-72030243 MsG0280010599.01.T01:intron 30.0%
! TGGATGATTTTCTTGTGTAT+TGG - Chr2:72029723-72029742 MsG0280010599.01.T01:intron 30.0%
!! CATGTTTTGAACATGGTTTT+GGG - Chr2:72029577-72029596 MsG0280010599.01.T01:intron 30.0%
!! GCTTTATTATGTGTTTTCCA+TGG - Chr2:72029838-72029857 MsG0280010599.01.T01:intron 30.0%
!! TAGAATTGACTTGACATTGA+GGG + Chr2:72030312-72030331 None:intergenic 30.0%
!! TCATAAGAGTATTCTATCAC+TGG - Chr2:72029913-72029932 MsG0280010599.01.T01:intron 30.0%
!!! GAAGAAATTTGGTGTGATTT+TGG + Chr2:72029491-72029510 None:intergenic 30.0%
!!! TTTTGAGACATAAAGCTTCT+AGG + Chr2:72029702-72029721 None:intergenic 30.0%
AGCAAAGAACAAGTATAACG+TGG - Chr2:72029370-72029389 MsG0280010599.01.T01:CDS 35.0%
CCAAAACCATGTTCAAAACA+TGG + Chr2:72029579-72029598 None:intergenic 35.0%
CTTCTGATGGAACAAAATAG+GGG + Chr2:72030196-72030215 None:intergenic 35.0%
GAGAGATATTAAGATGAGGT+TGG + Chr2:72030355-72030374 None:intergenic 35.0%
TCTTCTTTAGTTGCAAGAGA+AGG - Chr2:72031095-72031114 MsG0280010599.01.T01:exon 35.0%
TTCTGATGGAACAAAATAGG+GGG + Chr2:72030195-72030214 None:intergenic 35.0%
TTTATATGTGTGACAGGATG+TGG - Chr2:72030910-72030929 MsG0280010599.01.T01:intron 35.0%
! ACAGAGTAAGTACTCTGTTT+TGG + Chr2:72029452-72029471 None:intergenic 35.0%
!! AGAAGGTACCTAATGGTTAT+AGG - Chr2:72031375-72031394 MsG0280010599.01.T01:five_prime_UTR 35.0%
!! CCATGTTTTGAACATGGTTT+TGG - Chr2:72029576-72029595 MsG0280010599.01.T01:intron 35.0%
!! CTAGAATTGACTTGACATTG+AGG + Chr2:72030313-72030332 None:intergenic 35.0%
!! GTGTTTTCTTCAGTTTTGTC+TGG - Chr2:72029550-72029569 MsG0280010599.01.T01:intron 35.0%
!! TGGAAACCATGTTTTGAACA+TGG - Chr2:72029570-72029589 MsG0280010599.01.T01:intron 35.0%
!! TTTACTTTTCACTTCTCGCT+TGG + Chr2:72029419-72029438 None:intergenic 35.0%
ACAAGTATAACGTGGCACAT+AGG - Chr2:72029378-72029397 MsG0280010599.01.T01:CDS 40.0%
CATGGTACCTTGAGTTATTG+TGG - Chr2:72030869-72030888 MsG0280010599.01.T01:intron 40.0%
GTGAATCAACTGTTAGGAGA+AGG - Chr2:72031358-72031377 MsG0280010599.01.T01:five_prime_UTR 40.0%
TCTGTTCACTCTGATTCTTC+TGG - Chr2:72029523-72029542 MsG0280010599.01.T01:intron 40.0%
TGGACTATTCCTGAACCTAA+AGG - Chr2:72030930-72030949 MsG0280010599.01.T01:intron 40.0%
TTCTCTCTCTCTCTCTCTAA+CGG + Chr2:72029336-72029355 None:intergenic 40.0%
! CACAATAACTCAAGGTACCA+TGG + Chr2:72030871-72030890 None:intergenic 40.0%
! GCTATGACTTGGAAAAGTAG+AGG - Chr2:72029666-72029685 MsG0280010599.01.T01:intron 40.0%
! GCTCAAGAGTCTCTAAAAAG+TGG - Chr2:72031306-72031325 MsG0280010599.01.T01:five_prime_UTR 40.0%
! GCTTTGTTACCAACTTACCA+TGG - Chr2:72030851-72030870 MsG0280010599.01.T01:intron 40.0%
!! TGTTAGGAGAAGGTACCTAA+TGG - Chr2:72031368-72031387 MsG0280010599.01.T01:five_prime_UTR 40.0%
ACTTGCAAGGACAACAGCAA+TGG - Chr2:72030953-72030972 MsG0280010599.01.T01:intron 45.0%
CTGAACCTAAAGGACTTGCA+AGG - Chr2:72030940-72030959 MsG0280010599.01.T01:intron 45.0%
CTTTCTGTGTCTGTCTTTGC+AGG + Chr2:72029298-72029317 None:intergenic 45.0%
GACTTGGAAAAGTAGAGGAG+AGG - Chr2:72029671-72029690 MsG0280010599.01.T01:intron 45.0%
GTTGTCCTTGCAAGTCCTTT+AGG + Chr2:72030948-72030967 None:intergenic 45.0%
TGTATTGGAAGCTTCTGTGC+TGG - Chr2:72029738-72029757 MsG0280010599.01.T01:intron 45.0%
! CTCAAGGTACCATGGTAAGT+TGG + Chr2:72030863-72030882 None:intergenic 45.0%
! CTTGCAAGTCCTTTAGGTTC+AGG + Chr2:72030942-72030961 None:intergenic 45.0%
! GCTGGATGTTTTTCACCAAC+AGG - Chr2:72029756-72029775 MsG0280010599.01.T01:intron 45.0%
!! AAAAATCATATAATATTTAA+AGG + Chr2:72030030-72030049 None:intergenic 5.0%
!! TTAAAAATCATATAATATAA+AGG + Chr2:72030148-72030167 None:intergenic 5.0%
GAAGTGAAGCGCGATACGAA+AGG - Chr2:72031117-72031136 MsG0280010599.01.T01:five_prime_UTR 50.0%
TGAACCTTGTGGCATCCAAG+TGG + Chr2:72031448-72031467 None:intergenic 50.0%
GAGATTCCGTTCGCGCCACT+TGG - Chr2:72031430-72031449 MsG0280010599.01.T01:five_prime_UTR 60.0%
TGGCATCCAAGTGGCGCGAA+CGG + Chr2:72031439-72031458 None:intergenic 60.0%
CGCGCCACTTGGATGCCACA+AGG - Chr2:72031441-72031460 MsG0280010599.01.T01:five_prime_UTR 65.0%
Chromosome Type Strat End Strand Name
Chr2 gene 72029294 72031470 72029294 ID=MsG0280010599.01;Name=MsG0280010599.01
Chr2 mRNA 72029294 72031470 72029294 ID=MsG0280010599.01.T01;Parent=MsG0280010599.01;Name=MsG0280010599.01.T01;_AED=0.44;_eAED=0.44;_QI=375|0.5|0.66|1|0|0.33|3|0|129
Chr2 exon 72029294 72029512 72029294 ID=MsG0280010599.01.T01:exon:19533;Parent=MsG0280010599.01.T01
Chr2 exon 72029598 72029659 72029598 ID=MsG0280010599.01.T01:exon:19532;Parent=MsG0280010599.01.T01
Chr2 exon 72030987 72031470 72030987 ID=MsG0280010599.01.T01:exon:19531;Parent=MsG0280010599.01.T01
Chr2 five_prime_UTR 72031096 72031470 72031096 ID=MsG0280010599.01.T01:five_prime_utr;Parent=MsG0280010599.01.T01
Chr2 CDS 72030987 72031095 72030987 ID=MsG0280010599.01.T01:cds;Parent=MsG0280010599.01.T01
Chr2 CDS 72029598 72029659 72029598 ID=MsG0280010599.01.T01:cds;Parent=MsG0280010599.01.T01
Chr2 CDS 72029294 72029512 72029294 ID=MsG0280010599.01.T01:cds;Parent=MsG0280010599.01.T01
Gene Sequence

>MsG0280010599.01.T01

ATGACTTGGAAAAGTAGAGGAGAGGTTGTTCCTAGAAGCTTTATGTCTCAAAAATGGATGATTTTCTTGTGTATTGGAAGCTTCTGTGCTGGATGTTTTTCACCAACAGTTGCAAGAGAAGGAAGTGAAGCGCGATACGAAAGGCGTTTTCAAGACACAAAAAACCATACAAAACTTAGACAAGACTATTTCAAATTTGGAATGGAACTAGCTTCTGCTAAAGCAGCTCAAGAGTCTCTAAAAAGTGGTGCTCCTGTATCAGAAGATATGAAGATAAGTGAATCAACTGTTAGGAGAAGGTACCTAATGGTTATAGGAATTAACACTGCTTTTAGCAGCAGAAAAAGAAGAGATTCCGTTCGCGCCACTTGGATGCCACAAGGTTCATAA

Protein sequence

>MsG0280010599.01.T01

MTWKSRGEVVPRSFMSQKWMIFLCIGSFCAGCFSPTVAREGSEARYERRFQDTKNHTKLRQDYFKFGMELASAKAAQESLKSGAPVSEDMKISESTVRRRYLMVIGINTAFSSRKRRDSVRATWMPQGS*