AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780039612.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039612.01.T01 MTR_7g076100 58.497 306 98 5 1 283 1 300 1.99e-109 319
MsG0780039612.01.T01 MTR_7g077620 49.468 376 95 8 1 284 1 373 1.49e-103 307
MsG0780039612.01.T01 MTR_7g077650 47.520 383 90 11 1 283 1 372 5.03e-97 290
MsG0780039612.01.T01 MTR_7g077660 47.978 371 95 8 5 283 4 368 1.62e-96 289
MsG0780039612.01.T01 MTR_7g076110 46.595 279 86 5 67 283 36 313 6.94e-69 216
MsG0780039612.01.T01 MTR_1g108740 36.667 360 130 14 3 281 2 344 1.37e-50 170
MsG0780039612.01.T01 MTR_5g038260 33.333 381 148 15 6 283 6 383 4.92e-45 156
MsG0780039612.01.T01 MTR_7g076130 62.903 124 22 3 101 200 25 148 9.89e-44 146
MsG0780039612.01.T01 MTR_5g038230 33.518 361 144 13 6 281 4 353 2.98e-43 151
MsG0780039612.01.T01 MTR_1g064570 31.095 402 150 14 5 283 3 400 1.19e-40 145
MsG0780039612.01.T01 MTR_5g082770 35.417 288 105 9 6 215 4 288 2.28e-40 142
MsG0780039612.01.T01 MTR_1g016150 37.546 269 91 8 3 229 2 235 8.54e-39 136
MsG0780039612.01.T01 MTR_5g082780 38.506 174 82 8 82 238 43 208 2.27e-23 95.9
MsG0780039612.01.T01 MTR_1g108750 50.000 90 41 3 6 91 4 93 1.40e-20 85.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 58 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCGCATAGTAAGTAAAATT+AGG 0.191950 7:-66712110 None:intergenic
AAAGAGCAAGCCAACCATTT+TGG 0.203122 7:+66711964 MsG0780039612.01.T01:CDS
ACCATCAAAACAATCAATTT+AGG 0.232527 7:+66711591 MsG0780039612.01.T01:CDS
GATATACTACTACACTTAAA+AGG 0.276632 7:-66711823 None:intergenic
AATGAACAAGCTTGAGAGTT+TGG 0.278023 7:+66712314 MsG0780039612.01.T01:CDS
ATTTGGTTGGTTTGCATTAG+TGG 0.297529 7:+66711771 MsG0780039612.01.T01:CDS
AAGATCACCAATGTTGTAAA+TGG 0.306746 7:-66711934 None:intergenic
TAGTTTGGTTCTTGACAAAT+TGG 0.317439 7:+66711502 MsG0780039612.01.T01:CDS
AGAAGAACTGCCTCTTAGTT+TGG 0.335492 7:+66711487 MsG0780039612.01.T01:CDS
TCGCATAGTAAGTAAAATTA+GGG 0.335896 7:-66712109 None:intergenic
AAGATCACATAGAGCATGTT+AGG 0.337175 7:+66711525 MsG0780039612.01.T01:CDS
GTTGAACTTGAAGGATATAA+TGG 0.375803 7:-66712066 None:intergenic
CGCTCCCTCTTGAAGGAAAT+CGG 0.378931 7:-66712507 None:intergenic
TGAGAAGATATTTCATCAAT+TGG 0.385439 7:+66712220 MsG0780039612.01.T01:CDS
AAATTAGGGTTATTTGAGTT+AGG 0.386206 7:-66712095 None:intergenic
AAAACCTCGCTCCCTCTTGA+AGG 0.408084 7:-66712514 None:intergenic
GGGTTCGACCGCAATTTCAA+TGG 0.414532 7:+66712538 MsG0780039612.01.T01:CDS
AAAAGGATTGACTAGAGTTA+TGG 0.415743 7:-66711806 None:intergenic
TATGAAAATTATAAGGTGTA+TGG 0.418200 7:+66711741 MsG0780039612.01.T01:intron
CACATAGAGCATGTTAGGTT+TGG 0.419463 7:+66711530 MsG0780039612.01.T01:CDS
AGGTGTATGGACTCTTCATT+TGG 0.419747 7:+66711754 MsG0780039612.01.T01:intron
GTAGACATCAAGTTTATATG+AGG 0.436334 7:-66712253 None:intergenic
GTATGGACTCTTCATTTGGT+TGG 0.436531 7:+66711758 MsG0780039612.01.T01:CDS
TGATGTCTACAAATTAGAAC+TGG 0.443705 7:+66712266 MsG0780039612.01.T01:CDS
TGTGCTATATGAATCCAAAA+TGG 0.443882 7:-66711978 None:intergenic
ACCAATACCATTCGTCTTCG+AGG 0.449702 7:-66711640 None:intergenic
GTCTTCGAGGATCATGATCA+TGG 0.468105 7:-66711627 None:intergenic
CAATGAGGAAGGTGGCAGAC+TGG 0.474514 7:+66711456 None:intergenic
GGTTCGACCGCAATTTCAAT+GGG 0.476709 7:+66712539 MsG0780039612.01.T01:CDS
AGGAGGATTGTTGAACTTGA+AGG 0.483112 7:-66712075 None:intergenic
TTGGTGTCGTGTGCAAGAAT+TGG 0.497007 7:+66711549 MsG0780039612.01.T01:CDS
AATCATTGAATGGAGACATA+TGG 0.507395 7:+66712193 MsG0780039612.01.T01:intron
TTGTCAAGAACCAAACTAAG+AGG 0.512788 7:-66711497 None:intergenic
ATTTATGACCATGGTATGCA+TGG 0.513250 7:+66712429 MsG0780039612.01.T01:CDS
AATGAGGAAGGTGGCAGACT+GGG 0.522188 7:+66711457 None:intergenic
ATATAATGGTGTGTCCTTCA+CGG 0.524661 7:-66712052 None:intergenic
ATTGCAGCCATTTACAACAT+TGG 0.532590 7:+66711927 MsG0780039612.01.T01:intron
TTAGGGTTATTTGAGTTAGG+AGG 0.546912 7:-66712092 None:intergenic
CTCAGGCTTGGCAATGAGGA+AGG 0.555628 7:+66711445 None:intergenic
GAGATCTATAATGCGAAGGA+TGG 0.563178 7:+66712462 MsG0780039612.01.T01:CDS
TTCTAACTTGGAGAAACGAG+AGG 0.573200 7:-66712388 None:intergenic
TTGCTATTTGCCGACCGTGA+AGG 0.573377 7:+66712038 MsG0780039612.01.T01:CDS
CTATCATCCCATTGAAATTG+CGG 0.589663 7:-66712546 None:intergenic
TCTTCGAGGATCATGATCAT+GGG 0.595038 7:-66711626 None:intergenic
CTATATGAATCCAAAATGGT+TGG 0.609689 7:-66711974 None:intergenic
ATTTCCTTCAAGAGGGAGCG+AGG 0.611028 7:+66712510 MsG0780039612.01.T01:CDS
TCGAGGATCATGATCATGGG+TGG 0.616682 7:-66711623 None:intergenic
GTTAGAGATCTATAATGCGA+AGG 0.619212 7:+66712458 MsG0780039612.01.T01:CDS
AATGGTGTGTCCTTCACGGT+CGG 0.620738 7:-66712048 None:intergenic
TCATGATCCTCGAAGACGAA+TGG 0.621729 7:+66711633 MsG0780039612.01.T01:CDS
GTGCAAGAATTGGCAATCAG+TGG 0.629037 7:+66711559 MsG0780039612.01.T01:CDS
TTTACCGATTTCCTTCAAGA+GGG 0.631099 7:+66712503 MsG0780039612.01.T01:CDS
TATGCGAAGATAGCTAGCAC+AGG 0.638016 7:+66712125 MsG0780039612.01.T01:CDS
ACTCTAAACCATGCATACCA+TGG 0.661226 7:-66712437 None:intergenic
AGGCTTGGCAATGAGGAAGG+TGG 0.663381 7:+66711448 None:intergenic
ATTGAATGGAGACATATGGA+TGG 0.693585 7:+66712197 MsG0780039612.01.T01:intron
TTAGAACTGGATGCCCAGAG+TGG 0.702949 7:+66712279 MsG0780039612.01.T01:CDS
ACACAGAAACTGAATCACCA+TGG 0.719525 7:-66712362 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATAATGTTGTATTTTATAA+AGG + Chr7:66712014-66712033 MsG0780039612.01.T01:CDS 10.0%
!!! AAATCTTTTCATAATACATT+GGG - Chr7:66712164-66712183 None:intergenic 15.0%
!!! ATTTATTTTATTTATGACCA+TGG + Chr7:66712420-66712439 MsG0780039612.01.T01:CDS 15.0%
!!! TAAATCTTTTCATAATACAT+TGG - Chr7:66712165-66712184 None:intergenic 15.0%
!! TATGAAAATTATAAGGTGTA+TGG + Chr7:66711741-66711760 MsG0780039612.01.T01:intron 20.0%
!!! TACACCTTATAATTTTCATA+CGG - Chr7:66711741-66711760 None:intergenic 20.0%
!!! TATTTTGTGAAATCATTGAA+TGG + Chr7:66712183-66712202 MsG0780039612.01.T01:intron 20.0%
! AATCATTTGGACTTGTAATT+GGG - Chr7:66711902-66711921 None:intergenic 25.0%
! ACCATCAAAACAATCAATTT+AGG + Chr7:66711591-66711610 MsG0780039612.01.T01:CDS 25.0%
! GATATACTACTACACTTAAA+AGG - Chr7:66711826-66711845 None:intergenic 25.0%
! TAATCATTTGGACTTGTAAT+TGG - Chr7:66711903-66711922 None:intergenic 25.0%
! TCGCATAGTAAGTAAAATTA+GGG - Chr7:66712112-66712131 None:intergenic 25.0%
! TGAGAAGATATTTCATCAAT+TGG + Chr7:66712220-66712239 MsG0780039612.01.T01:CDS 25.0%
! TTCGCATAGTAAGTAAAATT+AGG - Chr7:66712113-66712132 None:intergenic 25.0%
! TTTCCCGTATGAAAATTATA+AGG + Chr7:66711734-66711753 MsG0780039612.01.T01:intron 25.0%
!! AAATTAGGGTTATTTGAGTT+AGG - Chr7:66712098-66712117 None:intergenic 25.0%
!! AATCGAATCTTTTTCTAACT+TGG - Chr7:66712403-66712422 None:intergenic 25.0%
!! ACACCTTATAATTTTCATAC+GGG - Chr7:66711740-66711759 None:intergenic 25.0%
!!! GAAGACAACATTTTATTTGT+CGG + Chr7:66712336-66712355 MsG0780039612.01.T01:CDS 25.0%
!!! TCCTAAATTGATTGTTTTGA+TGG - Chr7:66711595-66711614 None:intergenic 25.0%
AAAAGGATTGACTAGAGTTA+TGG - Chr7:66711809-66711828 None:intergenic 30.0%
AAGATCACCAATGTTGTAAA+TGG - Chr7:66711937-66711956 None:intergenic 30.0%
AATCATTGAATGGAGACATA+TGG + Chr7:66712193-66712212 MsG0780039612.01.T01:intron 30.0%
ATACGGGAAAAAATGTAACA+GGG - Chr7:66711724-66711743 None:intergenic 30.0%
CTATATGAATCCAAAATGGT+TGG - Chr7:66711977-66711996 None:intergenic 30.0%
GTAGACATCAAGTTTATATG+AGG - Chr7:66712256-66712275 None:intergenic 30.0%
GTTGAACTTGAAGGATATAA+TGG - Chr7:66712069-66712088 None:intergenic 30.0%
TGATGTCTACAAATTAGAAC+TGG + Chr7:66712266-66712285 MsG0780039612.01.T01:CDS 30.0%
TGTGCTATATGAATCCAAAA+TGG - Chr7:66711981-66712000 None:intergenic 30.0%
TTTGTGACTTATGCTATACA+GGG - Chr7:66711696-66711715 None:intergenic 30.0%
! CTTTTCATAATACATTGGGA+TGG - Chr7:66712160-66712179 None:intergenic 30.0%
!! ATTTTATTTGTCGGAAACCA+TGG + Chr7:66712345-66712364 MsG0780039612.01.T01:CDS 30.0%
!! TAGTTTGGTTCTTGACAAAT+TGG + Chr7:66711502-66711521 MsG0780039612.01.T01:CDS 30.0%
AAGATCACATAGAGCATGTT+AGG + Chr7:66711525-66711544 MsG0780039612.01.T01:CDS 35.0%
AATGAACAAGCTTGAGAGTT+TGG + Chr7:66712314-66712333 MsG0780039612.01.T01:CDS 35.0%
ATATAATGGTGTGTCCTTCA+CGG - Chr7:66712055-66712074 None:intergenic 35.0%
ATTGAATGGAGACATATGGA+TGG + Chr7:66712197-66712216 MsG0780039612.01.T01:intron 35.0%
ATTGCAGCCATTTACAACAT+TGG + Chr7:66711927-66711946 MsG0780039612.01.T01:intron 35.0%
ATTTATGACCATGGTATGCA+TGG + Chr7:66712429-66712448 MsG0780039612.01.T01:CDS 35.0%
CATACGGGAAAAAATGTAAC+AGG - Chr7:66711725-66711744 None:intergenic 35.0%
CTATCATCCCATTGAAATTG+CGG - Chr7:66712549-66712568 None:intergenic 35.0%
CTTTGTGACTTATGCTATAC+AGG - Chr7:66711697-66711716 None:intergenic 35.0%
GCTGCAATGACATAATCATT+TGG - Chr7:66711915-66711934 None:intergenic 35.0%
GTTAGAGATCTATAATGCGA+AGG + Chr7:66712458-66712477 MsG0780039612.01.T01:CDS 35.0%
TTGAGATGTGGCAGAATAAT+GGG - Chr7:66711850-66711869 None:intergenic 35.0%
TTGTCAAGAACCAAACTAAG+AGG - Chr7:66711500-66711519 None:intergenic 35.0%
! TTAGGGTTATTTGAGTTAGG+AGG - Chr7:66712095-66712114 None:intergenic 35.0%
!! ATTTGGTTGGTTTGCATTAG+TGG + Chr7:66711771-66711790 MsG0780039612.01.T01:CDS 35.0%
!! TTGTTCAAGTTTTCCACTCT+GGG - Chr7:66712295-66712314 None:intergenic 35.0%
!! TTTACCGATTTCCTTCAAGA+GGG + Chr7:66712503-66712522 MsG0780039612.01.T01:CDS 35.0%
!! TTTGTTCAAGTTTTCCACTC+TGG - Chr7:66712296-66712315 None:intergenic 35.0%
!!! TTTTACCGATTTCCTTCAAG+AGG + Chr7:66712502-66712521 MsG0780039612.01.T01:CDS 35.0%
ACACAGAAACTGAATCACCA+TGG - Chr7:66712365-66712384 None:intergenic 40.0%
ACTCTAAACCATGCATACCA+TGG - Chr7:66712440-66712459 None:intergenic 40.0%
AGAAGAACTGCCTCTTAGTT+TGG + Chr7:66711487-66711506 MsG0780039612.01.T01:CDS 40.0%
AGGAGGATTGTTGAACTTGA+AGG - Chr7:66712078-66712097 None:intergenic 40.0%
AGGTGTATGGACTCTTCATT+TGG + Chr7:66711754-66711773 MsG0780039612.01.T01:intron 40.0%
CACATAGAGCATGTTAGGTT+TGG + Chr7:66711530-66711549 MsG0780039612.01.T01:CDS 40.0%
GAGATCTATAATGCGAAGGA+TGG + Chr7:66712462-66712481 MsG0780039612.01.T01:CDS 40.0%
GTATGGACTCTTCATTTGGT+TGG + Chr7:66711758-66711777 MsG0780039612.01.T01:CDS 40.0%
GTTGAGATGTGGCAGAATAA+TGG - Chr7:66711851-66711870 None:intergenic 40.0%
TCTTCGAGGATCATGATCAT+GGG - Chr7:66711629-66711648 None:intergenic 40.0%
TTCTAACTTGGAGAAACGAG+AGG - Chr7:66712391-66712410 None:intergenic 40.0%
! AAAGAGCAAGCCAACCATTT+TGG + Chr7:66711964-66711983 MsG0780039612.01.T01:CDS 40.0%
ACATCTCAACTCTCCCTACA+AGG + Chr7:66711861-66711880 MsG0780039612.01.T01:intron 45.0%
ACCAATACCATTCGTCTTCG+AGG - Chr7:66711643-66711662 None:intergenic 45.0%
GGTTCGACCGCAATTTCAAT+GGG + Chr7:66712539-66712558 MsG0780039612.01.T01:CDS 45.0%
GTCTTCGAGGATCATGATCA+TGG - Chr7:66711630-66711649 None:intergenic 45.0%
GTGCAAGAATTGGCAATCAG+TGG + Chr7:66711559-66711578 MsG0780039612.01.T01:CDS 45.0%
TATGCGAAGATAGCTAGCAC+AGG + Chr7:66712125-66712144 MsG0780039612.01.T01:CDS 45.0%
TCATGATCCTCGAAGACGAA+TGG + Chr7:66711633-66711652 MsG0780039612.01.T01:CDS 45.0%
TCCTCGAAGACGAATGGTAT+TGG + Chr7:66711639-66711658 MsG0780039612.01.T01:intron 45.0%
TGTAATTGGGTCAGCAGACA+AGG - Chr7:66711889-66711908 None:intergenic 45.0%
TTGTAGGGAGAGTTGAGATG+TGG - Chr7:66711862-66711881 None:intergenic 45.0%
! AGCAGACAAGGTACCTTGTA+GGG - Chr7:66711877-66711896 None:intergenic 45.0%
!! TTGGTGTCGTGTGCAAGAAT+TGG + Chr7:66711549-66711568 MsG0780039612.01.T01:CDS 45.0%
AAAACCTCGCTCCCTCTTGA+AGG - Chr7:66712517-66712536 None:intergenic 50.0%
AATGGTGTGTCCTTCACGGT+CGG - Chr7:66712051-66712070 None:intergenic 50.0%
ATTTCCTTCAAGAGGGAGCG+AGG + Chr7:66712510-66712529 MsG0780039612.01.T01:CDS 50.0%
CGCTCCCTCTTGAAGGAAAT+CGG - Chr7:66712510-66712529 None:intergenic 50.0%
GGGTTCGACCGCAATTTCAA+TGG + Chr7:66712538-66712557 MsG0780039612.01.T01:CDS 50.0%
TCGAGGATCATGATCATGGG+TGG - Chr7:66711626-66711645 None:intergenic 50.0%
TTAGAACTGGATGCCCAGAG+TGG + Chr7:66712279-66712298 MsG0780039612.01.T01:CDS 50.0%
! CAAGAGGGAGCGAGGTTTTT+GGG + Chr7:66712518-66712537 MsG0780039612.01.T01:CDS 50.0%
! CAGCAGACAAGGTACCTTGT+AGG - Chr7:66711878-66711897 None:intergenic 50.0%
! TCAAGAGGGAGCGAGGTTTT+TGG + Chr7:66712517-66712536 MsG0780039612.01.T01:CDS 50.0%
!! TTGCTATTTGCCGACCGTGA+AGG + Chr7:66712038-66712057 MsG0780039612.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr7 gene 66711458 66712581 66711458 ID=MsG0780039612.01;Name=MsG0780039612.01
Chr7 mRNA 66711458 66712581 66711458 ID=MsG0780039612.01.T01;Parent=MsG0780039612.01;Name=MsG0780039612.01.T01;_AED=0.49;_eAED=0.50;_QI=0|0|0|1|1|1|4|0|288
Chr7 exon 66711458 66711654 66711458 ID=MsG0780039612.01.T01:exon:13178;Parent=MsG0780039612.01.T01
Chr7 exon 66711756 66711838 66711756 ID=MsG0780039612.01.T01:exon:13179;Parent=MsG0780039612.01.T01
Chr7 exon 66711934 66712146 66711934 ID=MsG0780039612.01.T01:exon:13180;Parent=MsG0780039612.01.T01
Chr7 exon 66712208 66712581 66712208 ID=MsG0780039612.01.T01:exon:13181;Parent=MsG0780039612.01.T01
Chr7 CDS 66711458 66711654 66711458 ID=MsG0780039612.01.T01:cds;Parent=MsG0780039612.01.T01
Chr7 CDS 66711756 66711838 66711756 ID=MsG0780039612.01.T01:cds;Parent=MsG0780039612.01.T01
Chr7 CDS 66711934 66712146 66711934 ID=MsG0780039612.01.T01:cds;Parent=MsG0780039612.01.T01
Chr7 CDS 66712208 66712581 66712208 ID=MsG0780039612.01.T01:cds;Parent=MsG0780039612.01.T01
Gene Sequence

>MsG0780039612.01.T01

ATGAGGAAGGTGGCAGACTGGGCTAACTTAGAAGAACTGCCTCTTAGTTTGGTTCTTGACAAATTGGAAGATCACATAGAGCATGTTAGGTTTGGTGTCGTGTGCAAGAATTGGCAATCAGTGGCAAAGCTTAACCATCAAAACAATCAATTTAGGATTAATAAACCACCCATGATCATGATCCTCGAAGACGAATGGTGTATGGACTCTTCATTTGGTTGGTTTGCATTAGTGGACAATAACAATGCCATAACTCTAGTCAATCCTTTTAAGTGTAGTACCATTTACAACATTGGTGATCTTGCTTTCAAAAGAGCAAGCCAACCATTTTGGATTCATATAGCACATGAATTTGCTATCAATAATGTTGTATTTTATAAAGGCTTGCTATTTGCCGACCGTGAAGGACACACCATTATATCCTTCAAGTTCAACAATCCTCCTAACTCAAATAACCCTAATTTTACTTACTATGCGAAGATAGCTAGCACAGACATATGGATGGTGAGAAGATATTTCATCAATTGGTATGACAAGTCCTCATATAAACTTGATGTCTACAAATTAGAACTGGATGCCCAGAGTGGAAAACTTGAACAAATGAACAAGCTTGAGAGTTTGGAAGACAACATTTTATTTGTCGGAAACCATGGTGATTCAGTTTCTGTGTCAGCCTCTCGTTTCTCCAAGTTAGAAAAAGATTCGATTTATTTTATTTATGACCATGGTATGCATGGTTTAGAGTTAGAGATCTATAATGCGAAGGATGGAAGCTGTCAGAGACAATTTTTACCGATTTCCTTCAAGAGGGAGCGAGGTTTTTGGGTTCGACCGCAATTTCAATGGGATGATAGATCAGTTCTTTAA
Protein sequence

>MsG0780039612.01.T01

MRKVADWANLEELPLSLVLDKLEDHIEHVRFGVVCKNWQSVAKLNHQNNQFRINKPPMIMILEDEWCMDSSFGWFALVDNNNAITLVNPFKCSTIYNIGDLAFKRASQPFWIHIAHEFAINNVVFYKGLLFADREGHTIISFKFNNPPNSNNPNFTYYAKIASTDIWMVRRYFINWYDKSSYKLDVYKLELDAQSGKLEQMNKLESLEDNILFVGNHGDSVSVSASRFSKLEKDSIYFIYDHGMHGLELEIYNAKDGSCQRQFLPISFKRERGFWVRPQFQWDDRSVL*