AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480021870.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021870.01.T01 MTR_4g478190 97.118 347 10 0 1 347 512 858 0.0 671
MsG0480021870.01.T01 MTR_5g007350 63.873 346 99 9 1 345 563 883 2.40e-109 339
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021870.01.T01 AT5G16730 49.167 360 148 10 1 347 516 853 7.00e-70 234
MsG0480021870.01.T01 AT3G02930 43.966 348 148 6 1 347 505 806 6.27e-59 203
MsG0480021870.01.T01 AT3G02930 43.966 348 148 6 1 347 505 806 6.27e-59 203
MsG0480021870.01.T01 AT3G02930 43.966 348 148 6 1 347 503 804 6.87e-59 203
MsG0480021870.01.T01 AT1G65010 39.732 224 91 3 1 182 508 729 6.46e-27 112
MsG0480021870.01.T01 AT4G27595 40.984 183 102 2 1 179 504 684 2.22e-25 107
MsG0480021870.01.T01 AT4G27595 40.984 183 102 2 1 179 495 675 2.60e-25 107

Find 66 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAATGTTGTTTCTATTTC+TGG 0.107855 4:+65405773 None:intergenic
AAAGCTTTGCTTGGAAAATT+TGG 0.148163 4:-65405826 MsG0480021870.01.T01:CDS
TTCATGCTCAGTGTGATTTC+TGG 0.166546 4:+65406356 None:intergenic
TCAGAAAATTCAACGACTTT+AGG 0.228754 4:+65406291 None:intergenic
GAGAGCTTTGATAAGATAAA+TGG 0.293654 4:-65405931 MsG0480021870.01.T01:CDS
GAGTTGCACGATTGAGAAAA+AGG 0.311057 4:-65406043 MsG0480021870.01.T01:CDS
CTGAGCTTCTTCCTCCCTAT+TGG 0.336344 4:+65406596 None:intergenic
TCTTTGCTCTCATCTTCCTT+TGG 0.336435 4:+65406105 None:intergenic
GAAGAGAATGGTCATGGATA+TGG 0.341434 4:-65406270 MsG0480021870.01.T01:CDS
AATCACACTGAGCATGAAAA+TGG 0.356757 4:-65406351 MsG0480021870.01.T01:CDS
GGAGGAGTTGTCAAAGTTAC+TGG 0.363861 4:-65406391 MsG0480021870.01.T01:CDS
CTCCACCTTCTTAATAGATT+CGG 0.374470 4:+65406410 None:intergenic
AGGAAGAATCAAATGCCAAT+AGG 0.380382 4:-65406611 MsG0480021870.01.T01:CDS
AGGGAAAGCTCAACAACCTT+TGG 0.390841 4:+65406234 None:intergenic
TTTGAGTTCTTCCTGATTGA+GGG 0.393979 4:+65406215 None:intergenic
GAAACTGAAGGAGAATATAT+TGG 0.413498 4:-65406493 MsG0480021870.01.T01:CDS
GCATGAAAATGGTGATCTTT+CGG 0.415307 4:-65406340 MsG0480021870.01.T01:CDS
GCCTCTGGAAGTTCTCTCTC+TGG 0.419412 4:+65406006 None:intergenic
TCTTCCAATGATTTAGCCTC+TGG 0.426077 4:+65405991 None:intergenic
TGTTGAGCTTTCCCTCAATC+AGG 0.432554 4:-65406226 MsG0480021870.01.T01:CDS
GTTATAGAGAACATTGATAA+TGG 0.439389 4:-65405901 MsG0480021870.01.T01:CDS
GTTTGAGTTCTTCCTGATTG+AGG 0.445779 4:+65406214 None:intergenic
CCTAAACCTGTGAAAATGAA+TGG 0.446361 4:-65406132 MsG0480021870.01.T01:CDS
CCTTTAGAGCTTCCTGCAGA+TGG 0.449526 4:+65406535 None:intergenic
ACTTCCAGAGGCTAAATCAT+TGG 0.450557 4:-65405995 MsG0480021870.01.T01:CDS
CCATCTGCAGGAAGCTCTAA+AGG 0.462254 4:-65406535 MsG0480021870.01.T01:CDS
GGAAGCTTGCTCAAGAAGAA+AGG 0.475338 4:-65405805 MsG0480021870.01.T01:CDS
GGAAGAATCAAATGCCAATA+GGG 0.476908 4:-65406610 MsG0480021870.01.T01:CDS
AAGAAGAAGAAAGCTTTGCT+TGG 0.483792 4:-65405835 MsG0480021870.01.T01:CDS
AGGAAGATGAGAGCAAAGAA+AGG 0.487813 4:-65406101 MsG0480021870.01.T01:CDS
ATCAATGTTCTCTATAACAG+TGG 0.492151 4:+65405906 None:intergenic
AAAACGATGAACTCCGAGCT+AGG 0.492776 4:-65406437 MsG0480021870.01.T01:CDS
GAGAATGGTCATGGATATGG+AGG 0.517496 4:-65406267 MsG0480021870.01.T01:CDS
TAGATTCGGCTTCCCTAGCT+CGG 0.520735 4:+65406424 None:intergenic
GACCGAGGCGATCCATCTGC+AGG 0.524077 4:-65406547 MsG0480021870.01.T01:CDS
TGAAGAAGAGAATGCGGCCG+CGG 0.524949 4:-65406676 MsG0480021870.01.T01:CDS
GGAGGAAGAAGCTCAGTTGA+AGG 0.540259 4:-65406589 MsG0480021870.01.T01:CDS
AGAGGCTAAATCATTGGAAG+AGG 0.542206 4:-65405989 MsG0480021870.01.T01:CDS
TGATCTTTCGGACAGCGAAA+AGG 0.544136 4:-65406328 MsG0480021870.01.T01:CDS
GGAAGATGAGAGCAAAGAAA+GGG 0.556487 4:-65406100 MsG0480021870.01.T01:CDS
ACTGAGTCAAAGACAGAAGA+AGG 0.566826 4:-65405964 MsG0480021870.01.T01:CDS
TGGTCATGGATATGGAGGAG+AGG 0.569474 4:-65406262 MsG0480021870.01.T01:CDS
GGAAGCCGAATCTATTAAGA+AGG 0.570744 4:-65406415 MsG0480021870.01.T01:CDS
AAGAAGTAGAATTCAAAATG+TGG 0.576268 4:-65406068 MsG0480021870.01.T01:CDS
AAACGATGAACTCCGAGCTA+GGG 0.576737 4:-65406436 MsG0480021870.01.T01:CDS
AGAAGTAGAATTCAAAATGT+GGG 0.576995 4:-65406067 MsG0480021870.01.T01:CDS
TGAGAACTCGAAGGCTGAGT+GGG 0.577593 4:-65406739 MsG0480021870.01.T01:CDS
ATAGAGAACATTGATAATGG+TGG 0.585848 4:-65405898 MsG0480021870.01.T01:CDS
AAGACAGAAGAAGGTGGTGA+TGG 0.591342 4:-65405955 MsG0480021870.01.T01:CDS
CGAATCTATTAAGAAGGTGG+AGG 0.596983 4:-65406409 MsG0480021870.01.T01:CDS
GTCTGAGAATGTGAAACTGA+AGG 0.597675 4:-65406505 MsG0480021870.01.T01:CDS
TCAGTTGAAGGAAAATCTGA+AGG 0.598448 4:-65406577 MsG0480021870.01.T01:CDS
AGCCGAATCTATTAAGAAGG+TGG 0.611971 4:-65406412 MsG0480021870.01.T01:CDS
GAAAATGAATGGAAAACCAA+AGG 0.613917 4:-65406121 MsG0480021870.01.T01:CDS
GAATGTGTTTGAGAACTCGA+AGG 0.623748 4:-65406748 MsG0480021870.01.T01:CDS
TTCCTGCAGATGGATCGCCT+CGG 0.629528 4:+65406545 None:intergenic
TTATTTGCTTAAACAAACTG+AGG 0.648313 4:-65406631 MsG0480021870.01.T01:CDS
TCTGAAGGAAGTTGAGACCG+AGG 0.650712 4:-65406562 MsG0480021870.01.T01:CDS
TTGAGAACTCGAAGGCTGAG+TGG 0.651278 4:-65406740 MsG0480021870.01.T01:CDS
AGAATCAAATGCCAATAGGG+AGG 0.651414 4:-65406607 MsG0480021870.01.T01:CDS
TGGAGGAGAGGAAATTCCAA+AGG 0.653330 4:-65406250 MsG0480021870.01.T01:CDS
AGCTTGCTCAAGAAGAAAGG+TGG 0.662119 4:-65405802 MsG0480021870.01.T01:CDS
GAAAACTGAAGAAGAGAATG+CGG 0.663328 4:-65406682 MsG0480021870.01.T01:CDS
AGTCAATGCTTGATGAAGCG+CGG 0.666394 4:-65406812 None:intergenic
ACCAGAGAGAGAACTTCCAG+AGG 0.698874 4:-65406007 MsG0480021870.01.T01:CDS
GAGTCAAAGACAGAAGAAGG+TGG 0.711580 4:-65405961 MsG0480021870.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GGAAAAAGAAATAAATAGAT+TGG - Chr4:65405938-65405957 MsG0480021870.01.T01:CDS 20.0%
! AAGAAGTAGAATTCAAAATG+TGG - Chr4:65406525-65406544 MsG0480021870.01.T01:CDS 25.0%
! AGAAGTAGAATTCAAAATGT+GGG - Chr4:65406526-65406545 MsG0480021870.01.T01:CDS 25.0%
! GTTATAGAGAACATTGATAA+TGG - Chr4:65406692-65406711 MsG0480021870.01.T01:CDS 25.0%
! TTATTTGCTTAAACAAACTG+AGG - Chr4:65405962-65405981 MsG0480021870.01.T01:CDS 25.0%
!! ATTTTGAATTCTACTTCTTC+TGG + Chr4:65406524-65406543 None:intergenic 25.0%
!!! TCTATTTATTTCTTTTTCCG+CGG + Chr4:65405937-65405956 None:intergenic 25.0%
AAAGCTTTGCTTGGAAAATT+TGG - Chr4:65406767-65406786 MsG0480021870.01.T01:CDS 30.0%
ATCAATGTTCTCTATAACAG+TGG + Chr4:65406690-65406709 None:intergenic 30.0%
GAAAATGAATGGAAAACCAA+AGG - Chr4:65406472-65406491 MsG0480021870.01.T01:CDS 30.0%
GAAACTGAAGGAGAATATAT+TGG - Chr4:65406100-65406119 MsG0480021870.01.T01:CDS 30.0%
TCAGAAAATTCAACGACTTT+AGG + Chr4:65406305-65406324 None:intergenic 30.0%
! GAGAGCTTTGATAAGATAAA+TGG - Chr4:65406662-65406681 MsG0480021870.01.T01:CDS 30.0%
! TCTCTTCTTCAGTTTTCTTT+AGG + Chr4:65405908-65405927 None:intergenic 30.0%
!! ATAGAGAACATTGATAATGG+TGG - Chr4:65406695-65406714 MsG0480021870.01.T01:CDS 30.0%
!! GTTGAATTTTCTGAAGAGAA+TGG - Chr4:65406311-65406330 MsG0480021870.01.T01:CDS 30.0%
!! TGTTGTTGTTCTTCTTTTAC+TGG + Chr4:65406728-65406747 None:intergenic 30.0%
AAGAAGAAGAAAGCTTTGCT+TGG - Chr4:65406758-65406777 MsG0480021870.01.T01:CDS 35.0%
AATCACACTGAGCATGAAAA+TGG - Chr4:65406242-65406261 MsG0480021870.01.T01:CDS 35.0%
AGGAAGAATCAAATGCCAAT+AGG - Chr4:65405982-65406001 MsG0480021870.01.T01:CDS 35.0%
CCTAAACCTGTGAAAATGAA+TGG - Chr4:65406461-65406480 MsG0480021870.01.T01:CDS 35.0%
CTCCACCTTCTTAATAGATT+CGG + Chr4:65406186-65406205 None:intergenic 35.0%
GAAAACTGAAGAAGAGAATG+CGG - Chr4:65405911-65405930 MsG0480021870.01.T01:CDS 35.0%
GCATGAAAATGGTGATCTTT+CGG - Chr4:65406253-65406272 MsG0480021870.01.T01:CDS 35.0%
GGAAGAATCAAATGCCAATA+GGG - Chr4:65405983-65406002 MsG0480021870.01.T01:CDS 35.0%
TCAGTTGAAGGAAAATCTGA+AGG - Chr4:65406016-65406035 MsG0480021870.01.T01:CDS 35.0%
! AGGAGATTCGATTTTCTCAT+CGG + Chr4:65406444-65406463 None:intergenic 35.0%
! CCATTCATTTTCACAGGTTT+AGG + Chr4:65406464-65406483 None:intergenic 35.0%
! GGTTTTCCATTCATTTTCAC+AGG + Chr4:65406470-65406489 None:intergenic 35.0%
! TTTGAGTTCTTCCTGATTGA+GGG + Chr4:65406381-65406400 None:intergenic 35.0%
!! TTTTCTGAAGAGAATGGTCA+TGG - Chr4:65406317-65406336 MsG0480021870.01.T01:CDS 35.0%
ACTGAGTCAAAGACAGAAGA+AGG - Chr4:65406629-65406648 MsG0480021870.01.T01:CDS 40.0%
ACTTCCAGAGGCTAAATCAT+TGG - Chr4:65406598-65406617 MsG0480021870.01.T01:CDS 40.0%
AGAATCAAATGCCAATAGGG+AGG - Chr4:65405986-65406005 MsG0480021870.01.T01:CDS 40.0%
AGAGGCTAAATCATTGGAAG+AGG - Chr4:65406604-65406623 MsG0480021870.01.T01:CDS 40.0%
AGCCGAATCTATTAAGAAGG+TGG - Chr4:65406181-65406200 MsG0480021870.01.T01:CDS 40.0%
AGGAAGATGAGAGCAAAGAA+AGG - Chr4:65406492-65406511 MsG0480021870.01.T01:CDS 40.0%
CGAATCTATTAAGAAGGTGG+AGG - Chr4:65406184-65406203 MsG0480021870.01.T01:CDS 40.0%
GAAGAGAATGGTCATGGATA+TGG - Chr4:65406323-65406342 MsG0480021870.01.T01:CDS 40.0%
GAATGTGTTTGAGAACTCGA+AGG - Chr4:65405845-65405864 MsG0480021870.01.T01:CDS 40.0%
GAGTTGCACGATTGAGAAAA+AGG - Chr4:65406550-65406569 MsG0480021870.01.T01:CDS 40.0%
GGAAGATGAGAGCAAAGAAA+GGG - Chr4:65406493-65406512 MsG0480021870.01.T01:CDS 40.0%
GGAAGCCGAATCTATTAAGA+AGG - Chr4:65406178-65406197 MsG0480021870.01.T01:CDS 40.0%
GTCTGAGAATGTGAAACTGA+AGG - Chr4:65406088-65406107 MsG0480021870.01.T01:CDS 40.0%
TCTTCCAATGATTTAGCCTC+TGG + Chr4:65406605-65406624 None:intergenic 40.0%
TCTTTGCTCTCATCTTCCTT+TGG + Chr4:65406491-65406510 None:intergenic 40.0%
TTCATGCTCAGTGTGATTTC+TGG + Chr4:65406240-65406259 None:intergenic 40.0%
! GTTTGAGTTCTTCCTGATTG+AGG + Chr4:65406382-65406401 None:intergenic 40.0%
AAAACGATGAACTCCGAGCT+AGG - Chr4:65406156-65406175 MsG0480021870.01.T01:CDS 45.0%
AAACGATGAACTCCGAGCTA+GGG - Chr4:65406157-65406176 MsG0480021870.01.T01:CDS 45.0%
AAGACAGAAGAAGGTGGTGA+TGG - Chr4:65406638-65406657 MsG0480021870.01.T01:CDS 45.0%
AGGGAAAGCTCAACAACCTT+TGG + Chr4:65406362-65406381 None:intergenic 45.0%
GAGAATGGTCATGGATATGG+AGG - Chr4:65406326-65406345 MsG0480021870.01.T01:CDS 45.0%
GAGTCAAAGACAGAAGAAGG+TGG - Chr4:65406632-65406651 MsG0480021870.01.T01:CDS 45.0%
GGAGGAGTTGTCAAAGTTAC+TGG - Chr4:65406202-65406221 MsG0480021870.01.T01:CDS 45.0%
TGATCTTTCGGACAGCGAAA+AGG - Chr4:65406265-65406284 MsG0480021870.01.T01:CDS 45.0%
TGGAGGAGAGGAAATTCCAA+AGG - Chr4:65406343-65406362 MsG0480021870.01.T01:CDS 45.0%
TGTTGAGCTTTCCCTCAATC+AGG - Chr4:65406367-65406386 MsG0480021870.01.T01:CDS 45.0%
! AGCTTGCTCAAGAAGAAAGG+TGG - Chr4:65406791-65406810 MsG0480021870.01.T01:CDS 45.0%
! GGAAGCTTGCTCAAGAAGAA+AGG - Chr4:65406788-65406807 MsG0480021870.01.T01:CDS 45.0%
ACCAGAGAGAGAACTTCCAG+AGG - Chr4:65406586-65406605 MsG0480021870.01.T01:CDS 50.0%
CTGAGCTTCTTCCTCCCTAT+TGG + Chr4:65406000-65406019 None:intergenic 50.0%
GGAGGAAGAAGCTCAGTTGA+AGG - Chr4:65406004-65406023 MsG0480021870.01.T01:CDS 50.0%
TAGATTCGGCTTCCCTAGCT+CGG + Chr4:65406172-65406191 None:intergenic 50.0%
TCTGAAGGAAGTTGAGACCG+AGG - Chr4:65406031-65406050 MsG0480021870.01.T01:CDS 50.0%
TGAGAACTCGAAGGCTGAGT+GGG - Chr4:65405854-65405873 MsG0480021870.01.T01:CDS 50.0%
TGGTCATGGATATGGAGGAG+AGG - Chr4:65406331-65406350 MsG0480021870.01.T01:CDS 50.0%
TTGAGAACTCGAAGGCTGAG+TGG - Chr4:65405853-65405872 MsG0480021870.01.T01:CDS 50.0%
! CCATCTGCAGGAAGCTCTAA+AGG - Chr4:65406058-65406077 MsG0480021870.01.T01:CDS 50.0%
!! CCTTTAGAGCTTCCTGCAGA+TGG + Chr4:65406061-65406080 None:intergenic 50.0%
TGAAGAAGAGAATGCGGCCG+CGG - Chr4:65405917-65405936 MsG0480021870.01.T01:CDS 55.0%
TTCCTGCAGATGGATCGCCT+CGG + Chr4:65406051-65406070 None:intergenic 55.0%
! GCCTCTGGAAGTTCTCTCTC+TGG + Chr4:65406590-65406609 None:intergenic 55.0%
GACCGAGGCGATCCATCTGC+AGG - Chr4:65406046-65406065 MsG0480021870.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 65405786 65406829 65405786 ID=MsG0480021870.01;Name=MsG0480021870.01
Chr4 mRNA 65405786 65406829 65405786 ID=MsG0480021870.01.T01;Parent=MsG0480021870.01;Name=MsG0480021870.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|347
Chr4 exon 65405786 65406829 65405786 ID=MsG0480021870.01.T01:exon:18070;Parent=MsG0480021870.01.T01
Chr4 CDS 65405786 65406829 65405786 ID=MsG0480021870.01.T01:cds;Parent=MsG0480021870.01.T01
Gene Sequence

>MsG0480021870.01.T01

ATGCTTGATGAAGCGCGGCATGAAATTGATGTTCTCATATACAGTATTGAAAATTCTAAGAATGTGTTTGAGAACTCGAAGGCTGAGTGGGATCAGAGAGAGCTTGATCTAGTCAGCAGCCTAAAGAAAACTGAAGAAGAGAATGCGGCCGCGGAAAAAGAAATAAATAGATTGGTTTATTTGCTTAAACAAACTGAGGAAGAATCAAATGCCAATAGGGAGGAAGAAGCTCAGTTGAAGGAAAATCTGAAGGAAGTTGAGACCGAGGCGATCCATCTGCAGGAAGCTCTAAAGGAAGTAACGTCTGAGAATGTGAAACTGAAGGAGAATATATTGGACAAAGAGAATGAAATGCAGAATCTTTTTCAAGAAAACGATGAACTCCGAGCTAGGGAAGCCGAATCTATTAAGAAGGTGGAGGAGTTGTCAAAGTTACTGGATGAAGCTACAACCAGAAATCACACTGAGCATGAAAATGGTGATCTTTCGGACAGCGAAAAGGACTATGATTTGCTTCCTAAAGTCGTTGAATTTTCTGAAGAGAATGGTCATGGATATGGAGGAGAGGAAATTCCAAAGGTTGTTGAGCTTTCCCTCAATCAGGAAGAACTCAAACATAGCTTACTAGAAGAAAGTATGATCTTGAATGACAACGCCGATGAGAAAATCGAATCTCCTAAACCTGTGAAAATGAATGGAAAACCAAAGGAAGATGAGAGCAAAGAAAGGGATGATCCAGAAGAAGTAGAATTCAAAATGTGGGAGAGTTGCACGATTGAGAAAAAGGAGTTCTCTTTCTCACCAGAGAGAGAACTTCCAGAGGCTAAATCATTGGAAGAGGAAACTGAGTCAAAGACAGAAGAAGGTGGTGATGGTGAGAGCTTTGATAAGATAAATGGAACCACTGTTATAGAGAACATTGATAATGGTGGAAGCTCACCAGTAAAAGAAGAACAACAACAACAGTTGAAGAAGAAGAAGAAAGCTTTGCTTGGAAAATTTGGAAGCTTGCTCAAGAAGAAAGGTGGTAGCAACCAGAAATAG

Protein sequence

>MsG0480021870.01.T01

MLDEARHEIDVLIYSIENSKNVFENSKAEWDQRELDLVSSLKKTEEENAAAEKEINRLVYLLKQTEEESNANREEEAQLKENLKEVETEAIHLQEALKEVTSENVKLKENILDKENEMQNLFQENDELRAREAESIKKVEELSKLLDEATTRNHTEHENGDLSDSEKDYDLLPKVVEFSEENGHGYGGEEIPKVVELSLNQEELKHSLLEESMILNDNADEKIESPKPVKMNGKPKEDESKERDDPEEVEFKMWESCTIEKKEFSFSPERELPEAKSLEEETESKTEEGGDGESFDKINGTTVIENIDNGGSSPVKEEQQQQLKKKKKALLGKFGSLLKKKGGSNQK*