AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380015200.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380015200.01.T01 MTR_3g064900 94.937 158 8 0 1 158 1 158 8.10e-108 312
MsG0380015200.01.T01 MTR_6g038390 59.172 169 63 2 3 167 5 171 1.86e-67 209
MsG0380015200.01.T01 MTR_6g038640 62.759 145 54 0 1 145 1 145 5.77e-64 201
MsG0380015200.01.T01 MTR_6g066230 64.583 144 51 0 1 144 1 144 2.43e-63 199
MsG0380015200.01.T01 MTR_6g038650 57.692 156 64 1 1 156 1 154 4.89e-62 196
MsG0380015200.01.T01 MTR_6g038350 58.642 162 65 1 3 164 5 164 2.93e-60 191
MsG0380015200.01.T01 MTR_6g038370 58.642 162 65 1 3 164 5 164 2.93e-60 191
MsG0380015200.01.T01 MTR_1g097250 57.554 139 59 0 7 145 6 144 4.13e-55 178
MsG0380015200.01.T01 MTR_6g038310 61.947 113 43 0 3 115 5 117 2.11e-42 138
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380015200.01.T01 AT4G09670 53.049 164 75 1 1 164 1 162 7.09e-60 190
MsG0380015200.01.T01 AT1G66130 55.862 145 63 1 1 144 1 145 6.97e-52 169
MsG0380015200.01.T01 AT1G34200 52.740 146 68 1 1 145 1 146 1.45e-51 169

Find 54 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCCAATGGTGTGCAGTTTA+TGG 0.258616 3:+66747263 MsG0380015200.01.T01:CDS
CTTTCTAATTCCGATGGTAT+TGG 0.331158 3:+66747342 MsG0380015200.01.T01:CDS
TATATAAGATATAATGAAAT+AGG 0.350527 3:-66747387 None:intergenic
GATGAGGTTGTGGAGGATTC+AGG 0.351521 3:+66747096 MsG0380015200.01.T01:CDS
TGGCGATGGTGGCGCAGCCT+AGG 0.436432 3:-66746939 None:intergenic
ATGGCGGAGATGGTGGCGTT+GGG 0.440061 3:-66746991 None:intergenic
GAGAAAGATACAGTGCGTTT+CGG 0.464561 3:+66746913 MsG0380015200.01.T01:CDS
GCATGTGCTGGTGGAGAAGC+CGG 0.466808 3:+66747194 MsG0380015200.01.T01:CDS
TATGGCGGAGATGGTGGCGT+TGG 0.470684 3:-66746992 None:intergenic
GCGGCTTCCTATGGCGGAGA+TGG 0.476940 3:-66747001 None:intergenic
CTATGTGGTTGCATCATCCT+AGG 0.478582 3:+66747292 MsG0380015200.01.T01:CDS
TGATATGGAGCGGCTTCCTA+TGG 0.484794 3:-66747010 None:intergenic
ACAGTGCGTTTCGGCATCCT+AGG 0.485332 3:+66746922 MsG0380015200.01.T01:CDS
CTTGATCTTTCTAATTCCGA+TGG 0.493134 3:+66747336 MsG0380015200.01.T01:CDS
TGTTCCATGTTCACAGTCCT+AGG 0.506149 3:-66747309 None:intergenic
GGACCCGTTCAATTTGTAAG+TGG 0.506259 3:+66747363 MsG0380015200.01.T01:CDS
CCGTAGATTGTTACACTGGC+TGG 0.516890 3:-66747066 None:intergenic
GGTCCACTTACAAATTGAAC+GGG 0.518152 3:-66747366 None:intergenic
CGGTAGCTATGATGAGGTTG+TGG 0.524492 3:+66747086 MsG0380015200.01.T01:CDS
ATCCATAAACTGCACACCAT+TGG 0.528802 3:-66747265 None:intergenic
CCAGCCAGTGTAACAATCTA+CGG 0.537246 3:+66747066 MsG0380015200.01.T01:CDS
ACATGTAGACTCGTCGGGAG+AGG 0.537706 3:-66747138 None:intergenic
TCATCCTAGGACTGTGAACA+TGG 0.546521 3:+66747305 MsG0380015200.01.T01:CDS
ACCTCACATGTAGACTCGTC+GGG 0.547814 3:-66747143 None:intergenic
GAAGCCGGCGGCACTTGATG+TGG 0.549884 3:+66747209 MsG0380015200.01.T01:CDS
TCCGCCACATCAAGTGCCGC+CGG 0.550213 3:-66747213 None:intergenic
AATGGTGTGCAGTTTATGGA+TGG 0.565540 3:+66747267 MsG0380015200.01.T01:CDS
AGGTCCACTTACAAATTGAA+CGG 0.572616 3:-66747367 None:intergenic
GCTTCCTATGGCGGAGATGG+TGG 0.573189 3:-66746998 None:intergenic
GCCGGCGGCACTTGATGTGG+CGG 0.574067 3:+66747212 MsG0380015200.01.T01:CDS
GAAGAAGAAGCATGTGCTGG+TGG 0.585956 3:+66747185 MsG0380015200.01.T01:CDS
CGACGAGTCTACATGTGAGG+TGG 0.586001 3:+66747145 MsG0380015200.01.T01:CDS
GAGGAAGAAGAAGCATGTGC+TGG 0.594568 3:+66747182 MsG0380015200.01.T01:CDS
AACGCCACCATCTCCGCCAT+AGG 0.596934 3:+66746994 MsG0380015200.01.T01:CDS
CACCTCACATGTAGACTCGT+CGG 0.597850 3:-66747144 None:intergenic
TTAGAAGCTTGTGAGGCCAA+TGG 0.602079 3:+66747249 MsG0380015200.01.T01:CDS
AGTTTATGGATGGGACTATG+TGG 0.604295 3:+66747277 MsG0380015200.01.T01:CDS
AGGAAGCCGCTCCATATCAA+AGG 0.605041 3:+66747014 MsG0380015200.01.T01:CDS
TTTGATCTTAGAAGCTTGTG+AGG 0.608724 3:+66747242 MsG0380015200.01.T01:CDS
GCTACCGTAGATTGTTACAC+TGG 0.617830 3:-66747070 None:intergenic
GACGAGTCTACATGTGAGGT+GGG 0.617838 3:+66747146 MsG0380015200.01.T01:CDS
TTGATGCCTTTGATATGGAG+CGG 0.624795 3:-66747020 None:intergenic
TCCCGACGAGTCTACATGTG+AGG 0.632243 3:+66747142 MsG0380015200.01.T01:CDS
TATGGAGCGGCTTCCTATGG+CGG 0.636562 3:-66747007 None:intergenic
TAGCTATGATGAGGTTGTGG+AGG 0.642933 3:+66747089 MsG0380015200.01.T01:CDS
TGTGCTGGTGGAGAAGCCGG+CGG 0.649516 3:+66747197 MsG0380015200.01.T01:CDS
AATCTACGGTAGCTATGATG+AGG 0.651603 3:+66747080 MsG0380015200.01.T01:CDS
TTGAACGGGTCCAATACCAT+CGG 0.652449 3:-66747352 None:intergenic
ATGGTGTGCAGTTTATGGAT+GGG 0.666018 3:+66747268 MsG0380015200.01.T01:CDS
GGTTGTGGAGGATTCAGGTG+TGG 0.667223 3:+66747101 MsG0380015200.01.T01:CDS
CACATGCTTCTTCTTCCTCG+CGG 0.669854 3:-66747178 None:intergenic
GGTGGGCGGTTGCTGCCGCG+AGG 0.686221 3:+66747163 MsG0380015200.01.T01:CDS
GGCGTTGGGAGTGAGAGTAA+TGG 0.710083 3:-66746977 None:intergenic
GAGTCTACATGTGAGGTGGG+CGG 0.731573 3:+66747149 MsG0380015200.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATATAAGATATAATGAAAT+AGG - Chr3:66747390-66747409 None:intergenic 10.0%
!!! AAATTTTGATGCCTTTGATA+TGG - Chr3:66747028-66747047 None:intergenic 25.0%
AGGTCCACTTACAAATTGAA+CGG - Chr3:66747370-66747389 None:intergenic 35.0%
CTTGATCTTTCTAATTCCGA+TGG + Chr3:66747336-66747355 MsG0380015200.01.T01:CDS 35.0%
CTTTCTAATTCCGATGGTAT+TGG + Chr3:66747342-66747361 MsG0380015200.01.T01:CDS 35.0%
TTTGATCTTAGAAGCTTGTG+AGG + Chr3:66747242-66747261 MsG0380015200.01.T01:CDS 35.0%
AATCTACGGTAGCTATGATG+AGG + Chr3:66747080-66747099 MsG0380015200.01.T01:CDS 40.0%
AATGGTGTGCAGTTTATGGA+TGG + Chr3:66747267-66747286 MsG0380015200.01.T01:CDS 40.0%
AGTTTATGGATGGGACTATG+TGG + Chr3:66747277-66747296 MsG0380015200.01.T01:CDS 40.0%
ATCCATAAACTGCACACCAT+TGG - Chr3:66747268-66747287 None:intergenic 40.0%
ATGGTGTGCAGTTTATGGAT+GGG + Chr3:66747268-66747287 MsG0380015200.01.T01:CDS 40.0%
GAGAAAGATACAGTGCGTTT+CGG + Chr3:66746913-66746932 MsG0380015200.01.T01:CDS 40.0%
GGTCCACTTACAAATTGAAC+GGG - Chr3:66747369-66747388 None:intergenic 40.0%
TTGATGCCTTTGATATGGAG+CGG - Chr3:66747023-66747042 None:intergenic 40.0%
!!! AATGGCTCTTGCTAGTTTTC+TGG - Chr3:66746962-66746981 None:intergenic 40.0%
CCAGCCAGTGTAACAATCTA+CGG + Chr3:66747066-66747085 MsG0380015200.01.T01:CDS 45.0%
CTATGTGGTTGCATCATCCT+AGG + Chr3:66747292-66747311 MsG0380015200.01.T01:CDS 45.0%
GCTACCGTAGATTGTTACAC+TGG - Chr3:66747073-66747092 None:intergenic 45.0%
GGACCCGTTCAATTTGTAAG+TGG + Chr3:66747363-66747382 MsG0380015200.01.T01:CDS 45.0%
TAGCTATGATGAGGTTGTGG+AGG + Chr3:66747089-66747108 MsG0380015200.01.T01:CDS 45.0%
TCATCCTAGGACTGTGAACA+TGG + Chr3:66747305-66747324 MsG0380015200.01.T01:CDS 45.0%
TGTTCCATGTTCACAGTCCT+AGG - Chr3:66747312-66747331 None:intergenic 45.0%
TTAGAAGCTTGTGAGGCCAA+TGG + Chr3:66747249-66747268 MsG0380015200.01.T01:CDS 45.0%
TTGAACGGGTCCAATACCAT+CGG - Chr3:66747355-66747374 None:intergenic 45.0%
! GGCTGGTAAACTGTTTTCGA+TGG - Chr3:66747052-66747071 None:intergenic 45.0%
!!! TCTTGCTAGTTTTCTGGCGA+TGG - Chr3:66746956-66746975 None:intergenic 45.0%
ACCTCACATGTAGACTCGTC+GGG - Chr3:66747146-66747165 None:intergenic 50.0%
AGGAAGCCGCTCCATATCAA+AGG + Chr3:66747014-66747033 MsG0380015200.01.T01:CDS 50.0%
CACATGCTTCTTCTTCCTCG+CGG - Chr3:66747181-66747200 None:intergenic 50.0%
CACCTCACATGTAGACTCGT+CGG - Chr3:66747147-66747166 None:intergenic 50.0%
CCGTAGATTGTTACACTGGC+TGG - Chr3:66747069-66747088 None:intergenic 50.0%
CGGTAGCTATGATGAGGTTG+TGG + Chr3:66747086-66747105 MsG0380015200.01.T01:CDS 50.0%
GACGAGTCTACATGTGAGGT+GGG + Chr3:66747146-66747165 MsG0380015200.01.T01:CDS 50.0%
GATGAGGTTGTGGAGGATTC+AGG + Chr3:66747096-66747115 MsG0380015200.01.T01:CDS 50.0%
GGCCAATGGTGTGCAGTTTA+TGG + Chr3:66747263-66747282 MsG0380015200.01.T01:CDS 50.0%
TGATATGGAGCGGCTTCCTA+TGG - Chr3:66747013-66747032 None:intergenic 50.0%
! GAAGAAGAAGCATGTGCTGG+TGG + Chr3:66747185-66747204 MsG0380015200.01.T01:CDS 50.0%
! GAGGAAGAAGAAGCATGTGC+TGG + Chr3:66747182-66747201 MsG0380015200.01.T01:CDS 50.0%
!!! TGCTAGTTTTCTGGCGATGG+TGG - Chr3:66746953-66746972 None:intergenic 50.0%
ACAGTGCGTTTCGGCATCCT+AGG + Chr3:66746922-66746941 MsG0380015200.01.T01:CDS 55.0%
ACATGTAGACTCGTCGGGAG+AGG - Chr3:66747141-66747160 None:intergenic 55.0%
CGACGAGTCTACATGTGAGG+TGG + Chr3:66747145-66747164 MsG0380015200.01.T01:CDS 55.0%
GAGTCTACATGTGAGGTGGG+CGG + Chr3:66747149-66747168 MsG0380015200.01.T01:CDS 55.0%
GGTTGTGGAGGATTCAGGTG+TGG + Chr3:66747101-66747120 MsG0380015200.01.T01:CDS 55.0%
TATGGAGCGGCTTCCTATGG+CGG - Chr3:66747010-66747029 None:intergenic 55.0%
TCCCGACGAGTCTACATGTG+AGG + Chr3:66747142-66747161 MsG0380015200.01.T01:CDS 55.0%
! GGCGTTGGGAGTGAGAGTAA+TGG - Chr3:66746980-66746999 None:intergenic 55.0%
AACGCCACCATCTCCGCCAT+AGG + Chr3:66746994-66747013 MsG0380015200.01.T01:CDS 60.0%
! ATGGCGGAGATGGTGGCGTT+GGG - Chr3:66746994-66747013 None:intergenic 60.0%
! GCATGTGCTGGTGGAGAAGC+CGG + Chr3:66747194-66747213 MsG0380015200.01.T01:CDS 60.0%
! GCTTCCTATGGCGGAGATGG+TGG - Chr3:66747001-66747020 None:intergenic 60.0%
! TATGGCGGAGATGGTGGCGT+TGG - Chr3:66746995-66747014 None:intergenic 60.0%
GAAGCCGGCGGCACTTGATG+TGG + Chr3:66747209-66747228 MsG0380015200.01.T01:CDS 65.0%
! GCGGCTTCCTATGGCGGAGA+TGG - Chr3:66747004-66747023 None:intergenic 65.0%
! TCCGCCACATCAAGTGCCGC+CGG - Chr3:66747216-66747235 None:intergenic 65.0%
! TGTGCTGGTGGAGAAGCCGG+CGG + Chr3:66747197-66747216 MsG0380015200.01.T01:CDS 65.0%
GCCGGCGGCACTTGATGTGG+CGG + Chr3:66747212-66747231 MsG0380015200.01.T01:CDS 70.0%
! TGGCGATGGTGGCGCAGCCT+AGG - Chr3:66746942-66746961 None:intergenic 70.0%
! GGTGGGCGGTTGCTGCCGCG+AGG + Chr3:66747163-66747182 MsG0380015200.01.T01:CDS 80.0%
Chromosome Type Strat End Strand Name
Chr3 gene 66746907 66747431 66746907 ID=MsG0380015200.01;Name=MsG0380015200.01
Chr3 mRNA 66746907 66747431 66746907 ID=MsG0380015200.01.T01;Parent=MsG0380015200.01;Name=MsG0380015200.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|174
Chr3 exon 66746907 66747431 66746907 ID=MsG0380015200.01.T01:exon:23091;Parent=MsG0380015200.01.T01
Chr3 CDS 66746907 66747431 66746907 ID=MsG0380015200.01.T01:cds;Parent=MsG0380015200.01.T01
Gene Sequence

>MsG0380015200.01.T01

ATGACTGAGAAAGATACAGTGCGTTTCGGCATCCTAGGCTGCGCCACCATCGCCAGAAAACTAGCAAGAGCCATTACTCTCACTCCCAACGCCACCATCTCCGCCATAGGAAGCCGCTCCATATCAAAGGCATCAAAATTTGCCATCGAAAACAGTTTACCAGCCAGTGTAACAATCTACGGTAGCTATGATGAGGTTGTGGAGGATTCAGGTGTGGATGCAGTGTACATTCCTCTCCCGACGAGTCTACATGTGAGGTGGGCGGTTGCTGCCGCGAGGAAGAAGAAGCATGTGCTGGTGGAGAAGCCGGCGGCACTTGATGTGGCGGAGCTTGATTTGATCTTAGAAGCTTGTGAGGCCAATGGTGTGCAGTTTATGGATGGGACTATGTGGTTGCATCATCCTAGGACTGTGAACATGGAACACTTGCTTGATCTTTCTAATTCCGATGGTATTGGACCCGTTCAATTTGTAAGTGGACCTATTTCATTATATCTTATATATTTTTCAAAGAAAAAACTCTAA

Protein sequence

>MsG0380015200.01.T01

MTEKDTVRFGILGCATIARKLARAITLTPNATISAIGSRSISKASKFAIENSLPASVTIYGSYDEVVEDSGVDAVYIPLPTSLHVRWAVAAARKKKHVLVEKPAALDVAELDLILEACEANGVQFMDGTMWLHHPRTVNMEHLLDLSNSDGIGPVQFVSGPISLYLIYFSKKKL*