AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780036480.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036480.01.T01 MTR_7g012950 99.655 290 1 0 1 290 191 480 0.0 607
MsG0780036480.01.T01 MTR_5g043970 84.192 291 45 1 1 290 191 481 0.0 533
MsG0780036480.01.T01 MTR_4g082990 81.034 290 55 0 1 290 191 480 0.0 513
MsG0780036480.01.T01 MTR_4g109360 72.085 283 79 0 1 283 194 476 1.68e-157 448
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036480.01.T01 AT5G15490 89.310 290 31 0 1 290 191 480 0.0 563
MsG0780036480.01.T01 AT3G29360 88.621 290 33 0 1 290 191 480 0.0 558
MsG0780036480.01.T01 AT3G29360 88.621 290 33 0 1 290 191 480 0.0 558
MsG0780036480.01.T01 AT5G39320 86.806 288 38 0 1 288 191 478 0.0 547
MsG0780036480.01.T01 AT1G26570 80.756 291 55 1 1 290 191 481 1.05e-180 507
MsG0780036480.01.T01 AT3G01010 83.436 163 22 2 128 290 1 158 2.68e-99 288

Find 74 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCACAGTTGTTGGACTCAT+TGG 0.269285 7:+8717722 None:intergenic
CTCACTTTCTTCACAGTTGT+TGG 0.276565 7:+8717713 None:intergenic
TGGATAGATCCCTCTGGATT+TGG 0.283487 7:+8717783 None:intergenic
GGTTTCATTGTTTACTCAAT+TGG 0.314253 7:-8717518 MsG0780036480.01.T01:CDS
CTTAACGCTAGTGTCGGTTT+TGG 0.319151 7:-8718109 MsG0780036480.01.T01:CDS
TATCCATGAACAAGTTTGAT+TGG 0.332354 7:-8717766 MsG0780036480.01.T01:CDS
CTGCGAGTGCAACGGCCTTC+CGG 0.337580 7:-8718044 MsG0780036480.01.T01:CDS
CGAAATCCTCTGAGCCAAAA+AGG 0.362463 7:+8718231 None:intergenic
AGATACTAACCACAAATCTT+TGG 0.407402 7:-8718285 MsG0780036480.01.T01:CDS
GACACTAGCGTTAAGGAACT+TGG 0.418129 7:+8718117 None:intergenic
CAAGGTTCAAGATATCCTTC+TGG 0.418226 7:+8718074 None:intergenic
GCTGAGAAGTTACGTGAGAT+TGG 0.419372 7:-8717539 MsG0780036480.01.T01:CDS
GTCCCAATCAAACTTGTTCA+TGG 0.427996 7:+8717763 None:intergenic
TTCCGGAGGTTGCAGAGTAC+TGG 0.430471 7:-8718027 MsG0780036480.01.T01:CDS
TCAGCACTTTGCGAGGCAAC+CGG 0.440606 7:-8718193 MsG0780036480.01.T01:CDS
CTCAGCAGACCAAAGATTTG+TGG 0.441168 7:+8718276 None:intergenic
CAAAACCGACACTAGCGTTA+AGG 0.442710 7:+8718110 None:intergenic
TGAAGAAAGTGAGTGTGGTT+TGG 0.443618 7:-8717703 MsG0780036480.01.T01:CDS
TGAAGAGTGTTTATGCTCAC+TGG 0.447479 7:-8718321 MsG0780036480.01.T01:CDS
ATCCATGAACAAGTTTGATT+GGG 0.448775 7:-8717765 MsG0780036480.01.T01:CDS
GAAGAAAGTGAGTGTGGTTT+GGG 0.451541 7:-8717702 MsG0780036480.01.T01:CDS
GTGGTTAGTATCTGCTCCTC+AGG 0.457655 7:+8718295 None:intergenic
GGGAGTCTCCCTTGTGTCAC+CGG 0.469437 7:+8717880 None:intergenic
CTTTATCGCCGAGTAGCCCT+TGG 0.471688 7:+8717843 None:intergenic
CAACAACACGGTTCACAAAA+CGG 0.474055 7:+8717969 None:intergenic
TTACTCAATTGGAAAACCAT+TGG 0.475272 7:-8717507 MsG0780036480.01.T01:CDS
CTCATTGGCTGCAAGTGGAT+TGG 0.475733 7:+8717737 None:intergenic
TTCCAGTACTCTGCAACCTC+CGG 0.478422 7:+8718025 None:intergenic
TTTGGTCCTCAGTAACTTGT+GGG 0.480858 7:+8717801 None:intergenic
ATTTGGTCCTCAGTAACTTG+TGG 0.489204 7:+8717800 None:intergenic
GTCGGCACTGACTCAAGGAT+TGG 0.493453 7:-8718142 MsG0780036480.01.T01:CDS
CCCGCCATTGATGTGTGCCA+AGG 0.498314 7:-8717860 MsG0780036480.01.T01:CDS
GTATCTGCATTCTGACTGAA+TGG 0.500895 7:-8717649 MsG0780036480.01.T01:CDS
TAGCCCTTGGCACACATCAA+TGG 0.507387 7:+8717856 None:intergenic
TTGGAAAACCATTGGATGCA+TGG 0.520140 7:-8717499 MsG0780036480.01.T01:CDS
TTGGACTCATTGGCTGCAAG+TGG 0.522664 7:+8717732 None:intergenic
TCTTGGATTCGCATTCAAGA+AGG 0.534347 7:-8717906 MsG0780036480.01.T01:CDS
TGTTCATGGATAGATCCCTC+TGG 0.540616 7:+8717777 None:intergenic
TCCTTGAGCCATGCATCCAA+TGG 0.549377 7:+8717491 None:intergenic
TGGTGGATCTTGCTTCCAGA+AGG 0.555042 7:-8718089 MsG0780036480.01.T01:CDS
TTCGCATTCAAGAAGGATAC+CGG 0.558102 7:-8717899 MsG0780036480.01.T01:CDS
CACTTGTTGAATGTTTGCAC+CGG 0.560696 7:+8718174 None:intergenic
ATGCTGTCGGCACTGACTCA+AGG 0.561093 7:-8718147 MsG0780036480.01.T01:CDS
TCAAGACACTTGATTATCAG+AGG 0.564119 7:-8717619 MsG0780036480.01.T01:CDS
TTATGCTCACTGGGTTCCTG+AGG 0.567009 7:-8718311 MsG0780036480.01.T01:CDS
ACCATTGGATGCATGGCTCA+AGG 0.567026 7:-8717492 MsG0780036480.01.T01:CDS
TGAGTCAGTGCCGACAGCAT+AGG 0.569368 7:+8718150 None:intergenic
AGAAGGATACCGGTGACACA+AGG 0.573409 7:-8717889 MsG0780036480.01.T01:CDS
CAACAAGTGGCCTATGCTGT+CGG 0.580264 7:-8718160 MsG0780036480.01.T01:CDS
GATGTGTGCCAAGGGCTACT+CGG 0.582142 7:-8717851 MsG0780036480.01.T01:CDS
GAAGAGTGTTTATGCTCACT+GGG 0.584180 7:-8718320 MsG0780036480.01.T01:CDS
CCGCCATTGATGTGTGCCAA+GGG 0.584441 7:-8717859 MsG0780036480.01.T01:CDS
TGCAATGTCAGCACTTTGCG+AGG 0.585037 7:-8718200 MsG0780036480.01.T01:CDS
CCTTGGCACACATCAATGGC+GGG 0.585118 7:+8717860 None:intergenic
TTGGCTGCAAGTGGATTGGA+TGG 0.586131 7:+8717741 None:intergenic
TGGGTCGAATATGCTAATGT+TGG 0.591439 7:+8717820 None:intergenic
CGAGTGCAACGGCCTTCCGG+AGG 0.592602 7:-8718041 MsG0780036480.01.T01:CDS
TATCTGCATTCTGACTGAAT+GGG 0.596014 7:-8717648 MsG0780036480.01.T01:CDS
AAGTTCCTTAACGCTAGTGT+CGG 0.598964 7:-8718115 MsG0780036480.01.T01:CDS
CGGTGCAAACATTCAACAAG+TGG 0.601557 7:-8718173 MsG0780036480.01.T01:CDS
GTCTACATCTGCGAGTGCAA+CGG 0.601622 7:-8718052 MsG0780036480.01.T01:CDS
ACACTAGCGTTAAGGAACTT+GGG 0.622226 7:+8718118 None:intergenic
CCCTTGGCACACATCAATGG+CGG 0.624582 7:+8717859 None:intergenic
AGTACTCTGCAACCTCCGGA+AGG 0.642261 7:+8718029 None:intergenic
TACTGAGGACCAAATCCAGA+GGG 0.645734 7:-8717792 MsG0780036480.01.T01:CDS
TGTTGCATCTATGTTCAACA+CGG 0.664574 7:-8717951 MsG0780036480.01.T01:CDS
AACTGTGAAGAAAGTGAGTG+TGG 0.665071 7:-8717708 MsG0780036480.01.T01:CDS
GCTCAAGGATATGCCAGCTG+TGG 0.666287 7:-8717477 MsG0780036480.01.T01:CDS
TGCACTCGCAGATGTAGACA+AGG 0.669616 7:+8718056 None:intergenic
GAAGGATACCGGTGACACAA+GGG 0.689172 7:-8717888 MsG0780036480.01.T01:CDS
ATTCGACCCACAAGTTACTG+AGG 0.700861 7:-8717807 MsG0780036480.01.T01:CDS
GAAGCAACAAAAGATGCACA+TGG 0.706553 7:-8717671 MsG0780036480.01.T01:CDS
TGAACATAGATGCAACAACA+CGG 0.712133 7:+8717957 None:intergenic
TTACTGAGGACCAAATCCAG+AGG 0.738098 7:-8717793 MsG0780036480.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AACAAAAAGATCGCTATTCT+TGG - Chr7:8717871-8717890 MsG0780036480.01.T01:CDS 30.0%
AGATACTAACCACAAATCTT+TGG - Chr7:8717509-8717528 MsG0780036480.01.T01:CDS 30.0%
ATCCATGAACAAGTTTGATT+GGG - Chr7:8718029-8718048 MsG0780036480.01.T01:CDS 30.0%
GGTTTCATTGTTTACTCAAT+TGG - Chr7:8718276-8718295 MsG0780036480.01.T01:CDS 30.0%
TATCCATGAACAAGTTTGAT+TGG - Chr7:8718028-8718047 MsG0780036480.01.T01:CDS 30.0%
TTACTCAATTGGAAAACCAT+TGG - Chr7:8718287-8718306 MsG0780036480.01.T01:CDS 30.0%
!!! AAACCAGCATTTGTTTTTGA+TGG - Chr7:8718216-8718235 MsG0780036480.01.T01:CDS 30.0%
CTTCCATCAAAAACAAATGC+TGG + Chr7:8718222-8718241 None:intergenic 35.0%
TATCTGCATTCTGACTGAAT+GGG - Chr7:8718146-8718165 MsG0780036480.01.T01:CDS 35.0%
TCAAGACACTTGATTATCAG+AGG - Chr7:8718175-8718194 MsG0780036480.01.T01:CDS 35.0%
TGAACATAGATGCAACAACA+CGG + Chr7:8717840-8717859 None:intergenic 35.0%
TGTTGCATCTATGTTCAACA+CGG - Chr7:8717843-8717862 MsG0780036480.01.T01:CDS 35.0%
!!! CAGCATTTGTTTTTGATGGA+AGG - Chr7:8718220-8718239 MsG0780036480.01.T01:CDS 35.0%
AACTGTGAAGAAAGTGAGTG+TGG - Chr7:8718086-8718105 MsG0780036480.01.T01:CDS 40.0%
AAGTTCCTTAACGCTAGTGT+CGG - Chr7:8717679-8717698 MsG0780036480.01.T01:CDS 40.0%
ACACTAGCGTTAAGGAACTT+GGG + Chr7:8717679-8717698 None:intergenic 40.0%
ATTTGGTCCTCAGTAACTTG+TGG + Chr7:8717997-8718016 None:intergenic 40.0%
CAACAACACGGTTCACAAAA+CGG + Chr7:8717828-8717847 None:intergenic 40.0%
CAAGGTTCAAGATATCCTTC+TGG + Chr7:8717723-8717742 None:intergenic 40.0%
CTCACTTTCTTCACAGTTGT+TGG + Chr7:8718084-8718103 None:intergenic 40.0%
GAAGAAAGTGAGTGTGGTTT+GGG - Chr7:8718092-8718111 MsG0780036480.01.T01:CDS 40.0%
GAAGCAACAAAAGATGCACA+TGG - Chr7:8718123-8718142 MsG0780036480.01.T01:CDS 40.0%
GTATCTGCATTCTGACTGAA+TGG - Chr7:8718145-8718164 MsG0780036480.01.T01:CDS 40.0%
TCTTGGATTCGCATTCAAGA+AGG - Chr7:8717888-8717907 MsG0780036480.01.T01:CDS 40.0%
TGAAGAAAGTGAGTGTGGTT+TGG - Chr7:8718091-8718110 MsG0780036480.01.T01:CDS 40.0%
TGGGTCGAATATGCTAATGT+TGG + Chr7:8717977-8717996 None:intergenic 40.0%
TTCACAGTTGTTGGACTCAT+TGG + Chr7:8718075-8718094 None:intergenic 40.0%
TTCGCATTCAAGAAGGATAC+CGG - Chr7:8717895-8717914 MsG0780036480.01.T01:CDS 40.0%
TTGGAAAACCATTGGATGCA+TGG - Chr7:8718295-8718314 MsG0780036480.01.T01:CDS 40.0%
! CACTTGTTGAATGTTTGCAC+CGG + Chr7:8717623-8717642 None:intergenic 40.0%
! GTCCCAATCAAACTTGTTCA+TGG + Chr7:8718034-8718053 None:intergenic 40.0%
! TTTGGTCCTCAGTAACTTGT+GGG + Chr7:8717996-8718015 None:intergenic 40.0%
!! GAAGAGTGTTTATGCTCACT+GGG - Chr7:8717474-8717493 MsG0780036480.01.T01:CDS 40.0%
!! TGAAGAGTGTTTATGCTCAC+TGG - Chr7:8717473-8717492 MsG0780036480.01.T01:CDS 40.0%
ATTCGACCCACAAGTTACTG+AGG - Chr7:8717987-8718006 MsG0780036480.01.T01:CDS 45.0%
CAAAACCGACACTAGCGTTA+AGG + Chr7:8717687-8717706 None:intergenic 45.0%
CGAAATCCTCTGAGCCAAAA+AGG + Chr7:8717566-8717585 None:intergenic 45.0%
CGGTGCAAACATTCAACAAG+TGG - Chr7:8717621-8717640 MsG0780036480.01.T01:CDS 45.0%
CTCAGCAGACCAAAGATTTG+TGG + Chr7:8717521-8717540 None:intergenic 45.0%
GACACTAGCGTTAAGGAACT+TGG + Chr7:8717680-8717699 None:intergenic 45.0%
GCTGAGAAGTTACGTGAGAT+TGG - Chr7:8718255-8718274 MsG0780036480.01.T01:CDS 45.0%
TACTGAGGACCAAATCCAGA+GGG - Chr7:8718002-8718021 MsG0780036480.01.T01:CDS 45.0%
TGGATAGATCCCTCTGGATT+TGG + Chr7:8718014-8718033 None:intergenic 45.0%
TGTTCATGGATAGATCCCTC+TGG + Chr7:8718020-8718039 None:intergenic 45.0%
TTACTGAGGACCAAATCCAG+AGG - Chr7:8718001-8718020 MsG0780036480.01.T01:CDS 45.0%
!!! CTTAACGCTAGTGTCGGTTT+TGG - Chr7:8717685-8717704 MsG0780036480.01.T01:CDS 45.0%
ACCATTGGATGCATGGCTCA+AGG - Chr7:8718302-8718321 MsG0780036480.01.T01:CDS 50.0%
AGAAGGATACCGGTGACACA+AGG - Chr7:8717905-8717924 MsG0780036480.01.T01:CDS 50.0%
CAACAAGTGGCCTATGCTGT+CGG - Chr7:8717634-8717653 MsG0780036480.01.T01:CDS 50.0%
GAAGGATACCGGTGACACAA+GGG - Chr7:8717906-8717925 MsG0780036480.01.T01:CDS 50.0%
GTCTACATCTGCGAGTGCAA+CGG - Chr7:8717742-8717761 MsG0780036480.01.T01:CDS 50.0%
GTGGTTAGTATCTGCTCCTC+AGG + Chr7:8717502-8717521 None:intergenic 50.0%
TAGCCCTTGGCACACATCAA+TGG + Chr7:8717941-8717960 None:intergenic 50.0%
TCCTTGAGCCATGCATCCAA+TGG + Chr7:8718306-8718325 None:intergenic 50.0%
TGCAATGTCAGCACTTTGCG+AGG - Chr7:8717594-8717613 MsG0780036480.01.T01:CDS 50.0%
TGCACTCGCAGATGTAGACA+AGG + Chr7:8717741-8717760 None:intergenic 50.0%
TTATGCTCACTGGGTTCCTG+AGG - Chr7:8717483-8717502 MsG0780036480.01.T01:CDS 50.0%
TTCCAGTACTCTGCAACCTC+CGG + Chr7:8717772-8717791 None:intergenic 50.0%
! CTCATTGGCTGCAAGTGGAT+TGG + Chr7:8718060-8718079 None:intergenic 50.0%
! TGGTGGATCTTGCTTCCAGA+AGG - Chr7:8717705-8717724 MsG0780036480.01.T01:CDS 50.0%
! TTGGACTCATTGGCTGCAAG+TGG + Chr7:8718065-8718084 None:intergenic 50.0%
!! GCTTGCTGCTAACGCCTTTT+TGG - Chr7:8717549-8717568 MsG0780036480.01.T01:CDS 50.0%
!! TTGGCTGCAAGTGGATTGGA+TGG + Chr7:8718056-8718075 None:intergenic 50.0%
!!! AACGCTAGTGTCGGTTTTGG+TGG - Chr7:8717688-8717707 MsG0780036480.01.T01:CDS 50.0%
!!! CTAACGCCTTTTTGGCTCAG+AGG - Chr7:8717557-8717576 MsG0780036480.01.T01:CDS 50.0%
AGTACTCTGCAACCTCCGGA+AGG + Chr7:8717768-8717787 None:intergenic 55.0%
CCCTTGGCACACATCAATGG+CGG + Chr7:8717938-8717957 None:intergenic 55.0%
CCGCCATTGATGTGTGCCAA+GGG - Chr7:8717935-8717954 MsG0780036480.01.T01:CDS 55.0%
CCTTGGCACACATCAATGGC+GGG + Chr7:8717937-8717956 None:intergenic 55.0%
CTTTATCGCCGAGTAGCCCT+TGG + Chr7:8717954-8717973 None:intergenic 55.0%
GATGTGTGCCAAGGGCTACT+CGG - Chr7:8717943-8717962 MsG0780036480.01.T01:CDS 55.0%
GCTCAAGGATATGCCAGCTG+TGG - Chr7:8718317-8718336 MsG0780036480.01.T01:CDS 55.0%
TCAGCACTTTGCGAGGCAAC+CGG - Chr7:8717601-8717620 MsG0780036480.01.T01:CDS 55.0%
TTCCGGAGGTTGCAGAGTAC+TGG - Chr7:8717767-8717786 MsG0780036480.01.T01:CDS 55.0%
!! ATGCTGTCGGCACTGACTCA+AGG - Chr7:8717647-8717666 MsG0780036480.01.T01:CDS 55.0%
!! GTCGGCACTGACTCAAGGAT+TGG - Chr7:8717652-8717671 MsG0780036480.01.T01:CDS 55.0%
!! TGAGTCAGTGCCGACAGCAT+AGG + Chr7:8717647-8717666 None:intergenic 55.0%
CCCGCCATTGATGTGTGCCA+AGG - Chr7:8717934-8717953 MsG0780036480.01.T01:CDS 60.0%
GGGAGTCTCCCTTGTGTCAC+CGG + Chr7:8717917-8717936 None:intergenic 60.0%
CTGCGAGTGCAACGGCCTTC+CGG - Chr7:8717750-8717769 MsG0780036480.01.T01:CDS 65.0%
CGAGTGCAACGGCCTTCCGG+AGG - Chr7:8717753-8717772 MsG0780036480.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr7 gene 8717472 8718344 8717472 ID=MsG0780036480.01;Name=MsG0780036480.01
Chr7 mRNA 8717472 8718344 8717472 ID=MsG0780036480.01.T01;Parent=MsG0780036480.01;Name=MsG0780036480.01.T01;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|290
Chr7 exon 8717472 8718344 8717472 ID=MsG0780036480.01.T01:exon:1407;Parent=MsG0780036480.01.T01
Chr7 CDS 8717472 8718344 8717472 ID=MsG0780036480.01.T01:cds;Parent=MsG0780036480.01.T01
Gene Sequence

>MsG0780036480.01.T01

ATGAAGAGTGTTTATGCTCACTGGGTTCCTGAGGAGCAGATACTAACCACAAATCTTTGGTCTGCTGAGCTATCTAAGCTTGCTGCTAACGCCTTTTTGGCTCAGAGGATTTCGTCTGTTAATGCAATGTCAGCACTTTGCGAGGCAACCGGTGCAAACATTCAACAAGTGGCCTATGCTGTCGGCACTGACTCAAGGATTGGACCCAAGTTCCTTAACGCTAGTGTCGGTTTTGGTGGATCTTGCTTCCAGAAGGATATCTTGAACCTTGTCTACATCTGCGAGTGCAACGGCCTTCCGGAGGTTGCAGAGTACTGGAAACAAGTGATCAAGATCAACGATTATCAGAAGAGCCGTTTTGTGAACCGTGTTGTTGCATCTATGTTCAACACGGTTTCAAACAAAAAGATCGCTATTCTTGGATTCGCATTCAAGAAGGATACCGGTGACACAAGGGAGACTCCCGCCATTGATGTGTGCCAAGGGCTACTCGGCGATAAAGCCAACATTAGCATATTCGACCCACAAGTTACTGAGGACCAAATCCAGAGGGATCTATCCATGAACAAGTTTGATTGGGACCATCCAATCCACTTGCAGCCAATGAGTCCAACAACTGTGAAGAAAGTGAGTGTGGTTTGGGATGCATATGAAGCAACAAAAGATGCACATGGTATCTGCATTCTGACTGAATGGGATGAGTTCAAGACACTTGATTATCAGAGGATTTATGAGAACATGCAAAAACCAGCATTTGTTTTTGATGGAAGGAACGTTGTCGATGCTGAGAAGTTACGTGAGATTGGTTTCATTGTTTACTCAATTGGAAAACCATTGGATGCATGGCTCAAGGATATGCCAGCTGTGGCATAA

Protein sequence

>MsG0780036480.01.T01

MKSVYAHWVPEEQILTTNLWSAELSKLAANAFLAQRISSVNAMSALCEATGANIQQVAYAVGTDSRIGPKFLNASVGFGGSCFQKDILNLVYICECNGLPEVAEYWKQVIKINDYQKSRFVNRVVASMFNTVSNKKIAILGFAFKKDTGDTRETPAIDVCQGLLGDKANISIFDPQVTEDQIQRDLSMNKFDWDHPIHLQPMSPTTVKKVSVVWDAYEATKDAHGICILTEWDEFKTLDYQRIYENMQKPAFVFDGRNVVDAEKLREIGFIVYSIGKPLDAWLKDMPAVA*