AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180006108.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180006108.01.T01 MTR_1g114640 83.105 219 29 2 1 212 1 218 2.32e-131 369
MsG0180006108.01.T01 MTR_1g033750 63.636 220 71 3 5 215 4 223 7.66e-95 276
MsG0180006108.01.T01 MTR_1g114640 80.723 166 24 2 1 159 1 165 1.82e-90 263
MsG0180006108.01.T01 MTR_1g114690 53.070 228 84 3 1 215 1 218 3.37e-77 231
MsG0180006108.01.T01 MTR_1g114690 51.982 227 86 3 1 214 1 217 5.11e-75 226
MsG0180006108.01.T01 MTR_1g114750 48.214 224 104 2 1 215 1 221 1.46e-70 215
MsG0180006108.01.T01 MTR_1g114690 46.565 262 83 4 1 215 1 252 5.31e-70 214
MsG0180006108.01.T01 MTR_1g114680 93.103 116 8 0 105 220 53 168 2.33e-68 208
MsG0180006108.01.T01 MTR_8g100065 58.896 163 66 1 54 215 23 185 4.48e-63 194
MsG0180006108.01.T01 MTR_6g077990 55.625 160 71 0 58 217 42 201 1.08e-62 194
MsG0180006108.01.T01 MTR_6g077990 52.000 175 84 0 43 217 26 200 1.09e-62 194
MsG0180006108.01.T01 MTR_1g115130 60.000 150 60 0 67 216 46 195 1.29e-62 194
MsG0180006108.01.T01 MTR_8g100065 58.896 163 66 1 54 215 45 207 1.71e-62 194
MsG0180006108.01.T01 MTR_6g077990 55.629 151 67 0 67 217 8 158 1.61e-58 182
MsG0180006108.01.T01 MTR_1g114690 50.867 173 62 3 1 160 1 163 2.45e-48 157
MsG0180006108.01.T01 MTR_7g083570 35.052 194 126 0 20 213 82 275 4.52e-43 147
MsG0180006108.01.T01 MTR_3g100750 32.212 208 130 2 15 212 49 255 8.36e-42 142
MsG0180006108.01.T01 MTR_8g069110 35.359 181 106 2 42 212 88 267 4.81e-41 141
MsG0180006108.01.T01 MTR_6g077990 51.240 121 59 0 43 163 26 146 3.61e-39 132
MsG0180006108.01.T01 MTR_8g100065 59.813 107 42 1 54 159 23 129 1.26e-38 130
MsG0180006108.01.T01 MTR_8g100065 59.813 107 42 1 54 159 45 151 4.26e-38 130
MsG0180006108.01.T01 MTR_2g076350 33.491 212 134 3 6 214 20 227 1.60e-33 120
MsG0180006108.01.T01 MTR_5g015750 76.712 73 9 2 1 66 1 72 7.92e-31 110
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180006108.01.T01 AT5G23370 59.000 200 81 1 16 215 18 216 6.40e-80 238
MsG0180006108.01.T01 AT5G08350 57.000 200 74 3 21 215 23 215 3.94e-76 229
MsG0180006108.01.T01 AT5G23350 55.072 207 82 3 16 217 18 218 4.17e-75 226
MsG0180006108.01.T01 AT5G23360 59.756 164 66 0 54 217 47 210 1.06e-72 220
MsG0180006108.01.T01 AT4G01600 40.909 176 103 1 42 216 14 189 5.18e-48 156
MsG0180006108.01.T01 AT4G01600 40.909 176 103 1 42 216 53 228 1.65e-47 156
MsG0180006108.01.T01 AT5G13200 36.170 188 120 0 29 216 77 264 3.06e-44 149
MsG0180006108.01.T01 AT4G01600 43.709 151 84 1 67 216 73 223 5.27e-43 145
MsG0180006108.01.T01 AT1G28200 35.678 199 116 4 22 212 60 254 6.37e-42 143
MsG0180006108.01.T01 AT1G28200 35.678 199 116 4 22 212 60 254 6.37e-42 143
MsG0180006108.01.T01 AT2G22475 35.079 191 121 2 23 212 103 291 8.02e-42 144
MsG0180006108.01.T01 AT5G13200 33.333 132 88 0 29 160 77 208 2.16e-25 99.0
MsG0180006108.01.T01 AT4G40100 27.368 190 103 2 23 212 62 216 4.64e-22 90.5
MsG0180006108.01.T01 AT2G22475 31.757 148 98 2 23 169 103 248 6.80e-22 90.5

Find 42 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGTTTCGACTTCTGGTTTA+TGG 0.139805 1:-100242083 MsG0180006108.01.T01:CDS
TTTCTTCATGAGTTACTTAA+TGG 0.146739 1:-100242876 MsG0180006108.01.T01:CDS
CTATGGATGGTTTCGACTTC+TGG 0.198951 1:-100242090 MsG0180006108.01.T01:CDS
AAGATAACAGATACAGTAAA+AGG 0.228633 1:-100242436 MsG0180006108.01.T01:CDS
TTTACTGTATCTGTTATCTT+TGG 0.247894 1:+100242439 None:intergenic
GGTTTCGACTTCTGGTTTAT+GGG 0.291409 1:-100242082 MsG0180006108.01.T01:CDS
GTTGGGAGCCAGAATTCTTC+AGG 0.336328 1:-100242404 MsG0180006108.01.T01:CDS
CCCGCCAACCTGAAGAATTC+TGG 0.351542 1:+100242396 None:intergenic
GATGAACATGTTTGGAAGAA+AGG 0.373892 1:-100242657 MsG0180006108.01.T01:CDS
ATTCATTAGAGTTCACTATA+AGG 0.401080 1:-100242197 MsG0180006108.01.T01:CDS
TATCTGCCAGCTGATTCTTC+TGG 0.418036 1:-100242828 MsG0180006108.01.T01:CDS
ATGACTAAGATGAACATGTT+TGG 0.423883 1:-100242665 MsG0180006108.01.T01:CDS
ATGAACATGTTTGGAAGAAA+GGG 0.430526 1:-100242656 MsG0180006108.01.T01:CDS
ATACATAGAAATAGTCACTA+TGG 0.430727 1:-100242107 MsG0180006108.01.T01:CDS
CCAGAATTCTTCAGGTTGGC+GGG 0.441065 1:-100242396 MsG0180006108.01.T01:CDS
GCCAGAATTCTTCAGGTTGG+CGG 0.449134 1:-100242397 MsG0180006108.01.T01:CDS
CTCTAAATCTCAGAGGGAAA+AGG 0.451562 1:-100242014 MsG0180006108.01.T01:CDS
ATCAAAATTTCTTCCTCGAA+TGG 0.453468 1:-100242223 MsG0180006108.01.T01:CDS
ACCTTGCTTTGACTTTGTGA+TGG 0.474385 1:+100242791 None:intergenic
TCTAATGAATTCTCCATTCG+AGG 0.480167 1:+100242210 None:intergenic
ATGAAGAGAAGGCCAGCTAT+AGG 0.493362 1:+100242283 None:intergenic
AGCTTTAAGATATCTTCAGC+AGG 0.515990 1:-100242041 MsG0180006108.01.T01:CDS
AGTAAAAGGGAAACTGAGGT+TGG 0.524536 1:-100242422 MsG0180006108.01.T01:CDS
TTGTAACCTGCAGTGAGACT+TGG 0.527828 1:-100242463 MsG0180006108.01.T01:intron
ACCACGTCAGGTCCTATAGC+TGG 0.538413 1:-100242295 MsG0180006108.01.T01:CDS
AGATAACAGATACAGTAAAA+GGG 0.540258 1:-100242435 MsG0180006108.01.T01:CDS
GGAGCCAGAATTCTTCAGGT+TGG 0.551383 1:-100242400 MsG0180006108.01.T01:CDS
GGCTATCTCTAAATCTCAGA+GGG 0.564713 1:-100242020 MsG0180006108.01.T01:CDS
GCACATGGAGTCCGAGAGCA+TGG 0.566367 1:-100242623 MsG0180006108.01.T01:intron
GTAAAAGGGAAACTGAGGTT+GGG 0.569074 1:-100242421 MsG0180006108.01.T01:CDS
TGTTACTTATCAACCACGTC+AGG 0.572611 1:-100242307 MsG0180006108.01.T01:CDS
ATAGAAATAGTCACTATGGA+TGG 0.592517 1:-100242103 MsG0180006108.01.T01:CDS
TCCATCACAAAGTCAAAGCA+AGG 0.594218 1:-100242792 MsG0180006108.01.T01:intron
AAGATTACATACCATGCTCT+CGG 0.595383 1:+100242612 None:intergenic
ACAGAAAGCAACTTTGTGAG+TGG 0.605272 1:+100242258 None:intergenic
TGTGAGTGGAAATGAAGAGA+AGG 0.611200 1:+100242272 None:intergenic
CAGAATTCTTCAGGTTGGCG+GGG 0.646633 1:-100242395 MsG0180006108.01.T01:CDS
TGGCAGATATCTCTTTGATG+AGG 0.656890 1:+100242842 None:intergenic
ATACAGTAAAAGGGAAACTG+AGG 0.664591 1:-100242426 MsG0180006108.01.T01:CDS
TATATGCCAGAAGAATCAGC+TGG 0.671059 1:+100242822 None:intergenic
AGGCTATCTCTAAATCTCAG+AGG 0.678214 1:-100242021 MsG0180006108.01.T01:CDS
GCCAGCTATAGGACCTGACG+TGG 0.697419 1:+100242294 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTCTATGTATTTTTCTGA+TGG + Chr1:100242782-100242801 None:intergenic 20.0%
!!! TGAAATAATACAGTTTTGTT+AGG + Chr1:100242141-100242160 None:intergenic 20.0%
! AAGATAACAGATACAGTAAA+AGG - Chr1:100242461-100242480 MsG0180006108.01.T01:intron 25.0%
! AGATAACAGATACAGTAAAA+GGG - Chr1:100242462-100242481 MsG0180006108.01.T01:intron 25.0%
! ATACATAGAAATAGTCACTA+TGG - Chr1:100242790-100242809 MsG0180006108.01.T01:intron 25.0%
! ATTCATTAGAGTTCACTATA+AGG - Chr1:100242700-100242719 MsG0180006108.01.T01:intron 25.0%
! TAGAATGAAGTAGTAATTGA+TGG - Chr1:100242398-100242417 MsG0180006108.01.T01:CDS 25.0%
! TTTACTGTATCTGTTATCTT+TGG + Chr1:100242461-100242480 None:intergenic 25.0%
! TTTCTTCATGAGTTACTTAA+TGG - Chr1:100242021-100242040 MsG0180006108.01.T01:CDS 25.0%
!! ATGATGCATCATACATATTT+TGG + Chr1:100242354-100242373 None:intergenic 25.0%
!! ATGATGCATCATTTGAAATT+TGG - Chr1:100242362-100242381 MsG0180006108.01.T01:CDS 25.0%
!! CATTTGAAATTTGGAATGAT+TGG - Chr1:100242371-100242390 MsG0180006108.01.T01:CDS 25.0%
!! TTTAATGTCATTGATGATCA+TGG - Chr1:100242175-100242194 MsG0180006108.01.T01:CDS 25.0%
!!! ACTTGTTGTATTTTTTCATG+TGG + Chr1:100242734-100242753 None:intergenic 25.0%
!!! GTTTCATCATATTTTGACTT+TGG + Chr1:100242760-100242779 None:intergenic 25.0%
ATAGAAATAGTCACTATGGA+TGG - Chr1:100242794-100242813 MsG0180006108.01.T01:CDS 30.0%
ATCAAAATTTCTTCCTCGAA+TGG - Chr1:100242674-100242693 MsG0180006108.01.T01:CDS 30.0%
ATGAACATGTTTGGAAGAAA+GGG - Chr1:100242241-100242260 MsG0180006108.01.T01:CDS 30.0%
ATGACTAAGATGAACATGTT+TGG - Chr1:100242232-100242251 MsG0180006108.01.T01:CDS 30.0%
! ATTCGAGGAAGAAATTTTGA+TGG + Chr1:100242675-100242694 None:intergenic 30.0%
! CATGGTCATTTCATATTTTC+AGG - Chr1:100242193-100242212 MsG0180006108.01.T01:CDS 30.0%
AAGATTACATACCATGCTCT+CGG + Chr1:100242288-100242307 None:intergenic 35.0%
ATACAGTAAAAGGGAAACTG+AGG - Chr1:100242471-100242490 MsG0180006108.01.T01:intron 35.0%
GATGAACATGTTTGGAAGAA+AGG - Chr1:100242240-100242259 MsG0180006108.01.T01:CDS 35.0%
TCTAATGAATTCTCCATTCG+AGG + Chr1:100242690-100242709 None:intergenic 35.0%
!! AGCTTTAAGATATCTTCAGC+AGG - Chr1:100242856-100242875 MsG0180006108.01.T01:CDS 35.0%
ACAGAAAGCAACTTTGTGAG+TGG + Chr1:100242642-100242661 None:intergenic 40.0%
AGGCTATCTCTAAATCTCAG+AGG - Chr1:100242876-100242895 MsG0180006108.01.T01:CDS 40.0%
AGTAAAAGGGAAACTGAGGT+TGG - Chr1:100242475-100242494 MsG0180006108.01.T01:intron 40.0%
CACAAAGTCAAAGCAAGGTA+TGG - Chr1:100242110-100242129 MsG0180006108.01.T01:CDS 40.0%
CTCTAAATCTCAGAGGGAAA+AGG - Chr1:100242883-100242902 MsG0180006108.01.T01:CDS 40.0%
GGCTATCTCTAAATCTCAGA+GGG - Chr1:100242877-100242896 MsG0180006108.01.T01:CDS 40.0%
GTAAAAGGGAAACTGAGGTT+GGG - Chr1:100242476-100242495 MsG0180006108.01.T01:intron 40.0%
TATATGCCAGAAGAATCAGC+TGG + Chr1:100242078-100242097 None:intergenic 40.0%
TCCATCACAAAGTCAAAGCA+AGG - Chr1:100242105-100242124 MsG0180006108.01.T01:CDS 40.0%
TGGCAGATATCTCTTTGATG+AGG + Chr1:100242058-100242077 None:intergenic 40.0%
TGTGAGTGGAAATGAAGAGA+AGG + Chr1:100242628-100242647 None:intergenic 40.0%
! ACCTTGCTTTGACTTTGTGA+TGG + Chr1:100242109-100242128 None:intergenic 40.0%
! GAGAGCATGGTATGTAATCT+TGG - Chr1:100242287-100242306 MsG0180006108.01.T01:CDS 40.0%
! TGTTACTTATCAACCACGTC+AGG - Chr1:100242590-100242609 MsG0180006108.01.T01:intron 40.0%
!! GGTTTCGACTTCTGGTTTAT+GGG - Chr1:100242815-100242834 MsG0180006108.01.T01:CDS 40.0%
!! TGGTTTCGACTTCTGGTTTA+TGG - Chr1:100242814-100242833 MsG0180006108.01.T01:CDS 40.0%
ATGAAGAGAAGGCCAGCTAT+AGG + Chr1:100242617-100242636 None:intergenic 45.0%
CTATGGATGGTTTCGACTTC+TGG - Chr1:100242807-100242826 MsG0180006108.01.T01:CDS 45.0%
TTGTAACCTGCAGTGAGACT+TGG - Chr1:100242434-100242453 MsG0180006108.01.T01:CDS 45.0%
! AAGGGTGACAGTTTTGCACA+TGG - Chr1:100242259-100242278 MsG0180006108.01.T01:CDS 45.0%
! TATCTGCCAGCTGATTCTTC+TGG - Chr1:100242069-100242088 MsG0180006108.01.T01:CDS 45.0%
GGAGCCAGAATTCTTCAGGT+TGG - Chr1:100242497-100242516 MsG0180006108.01.T01:intron 50.0%
GTTGGGAGCCAGAATTCTTC+AGG - Chr1:100242493-100242512 MsG0180006108.01.T01:intron 50.0%
TTTGGTCCAAGTCTCACTGC+AGG + Chr1:100242443-100242462 None:intergenic 50.0%
!! CAGAATTCTTCAGGTTGGCG+GGG - Chr1:100242502-100242521 MsG0180006108.01.T01:intron 50.0%
!! CCAGAATTCTTCAGGTTGGC+GGG - Chr1:100242501-100242520 MsG0180006108.01.T01:intron 50.0%
!! GCCAGAATTCTTCAGGTTGG+CGG - Chr1:100242500-100242519 MsG0180006108.01.T01:intron 50.0%
ACCACGTCAGGTCCTATAGC+TGG - Chr1:100242602-100242621 MsG0180006108.01.T01:intron 55.0%
CCCGCCAACCTGAAGAATTC+TGG + Chr1:100242504-100242523 None:intergenic 55.0%
GCACATGGAGTCCGAGAGCA+TGG - Chr1:100242274-100242293 MsG0180006108.01.T01:CDS 60.0%
GCCAGCTATAGGACCTGACG+TGG + Chr1:100242606-100242625 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 100242009 100242910 100242009 ID=MsG0180006108.01;Name=MsG0180006108.01
Chr1 mRNA 100242009 100242910 100242009 ID=MsG0180006108.01.T01;Parent=MsG0180006108.01;Name=MsG0180006108.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|3|0|220
Chr1 exon 100242793 100242910 100242793 ID=MsG0180006108.01.T01:exon:58887;Parent=MsG0180006108.01.T01
Chr1 exon 100242624 100242704 100242624 ID=MsG0180006108.01.T01:exon:58886;Parent=MsG0180006108.01.T01
Chr1 exon 100242009 100242472 100242009 ID=MsG0180006108.01.T01:exon:58885;Parent=MsG0180006108.01.T01
Chr1 CDS 100242793 100242910 100242793 ID=MsG0180006108.01.T01:cds;Parent=MsG0180006108.01.T01
Chr1 CDS 100242624 100242704 100242624 ID=MsG0180006108.01.T01:cds;Parent=MsG0180006108.01.T01
Chr1 CDS 100242009 100242472 100242009 ID=MsG0180006108.01.T01:cds;Parent=MsG0180006108.01.T01
Gene Sequence

>MsG0180006108.01.T01

ATGAAGACATCATTTCTTCATGAGTTACTTAATGGAATTTATGTTACCTCATCAAAGAGATATCTGCCAGCTGATTCTTCTGGCATATACAGCAAATCCATCACAAAGTCAAAGCAAGGTAAATTAAATTCAGTTATGACTAAGATGAACATGTTTGGAAGAAAGGGTGACAGTTTTGCACATGGAGTCCGAGAGCATGTGAGACTTGGACCAAAGATAACAGATACAGTAAAAGGGAAACTGAGGTTGGGAGCCAGAATTCTTCAGGTTGGCGGGGTAGAGAAAGTGTTTATGAAACTTTTTAATGTAAACGACAGAGAGAAGCTGTTGAAAGCATCGCAGTGTTACTTATCAACCACGTCAGGTCCTATAGCTGGCCTTCTCTTCATTTCCACTCACAAAGTTGCTTTCTGTAGTGACAAATCCATCAAAATTTCTTCCTCGAATGGAGAATTCATTAGAGTTCACTATAAGGTCTCTATTCCACATGAAAAAATACAACAAGTCAACCAAAGTCAAAATATGATGAAACCATCAGAAAAATACATAGAAATAGTCACTATGGATGGTTTCGACTTCTGGTTTATGGGTTTCTTCAATTACAAGAAAGCTTTAAGATATCTTCAGCAGGCTATCTCTAAATCTCAGAGGGAAAAGGTGTAG

Protein sequence

>MsG0180006108.01.T01

MKTSFLHELLNGIYVTSSKRYLPADSSGIYSKSITKSKQGKLNSVMTKMNMFGRKGDSFAHGVREHVRLGPKITDTVKGKLRLGARILQVGGVEKVFMKLFNVNDREKLLKASQCYLSTTSGPIAGLLFISTHKVAFCSDKSIKISSSNGEFIRVHYKVSIPHEKIQQVNQSQNMMKPSEKYIEIVTMDGFDFWFMGFFNYKKALRYLQQAISKSQREKV*