AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180006110.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180006110.01.T01 MTR_1g114640 85.238 210 31 0 1 210 1 210 5.57e-133 373
MsG0180006110.01.T01 MTR_1g114640 83.636 165 27 0 1 165 1 165 1.55e-97 281
MsG0180006110.01.T01 MTR_1g033750 63.810 210 73 2 5 211 4 213 5.73e-92 269
MsG0180006110.01.T01 MTR_1g114690 52.607 211 97 2 1 211 1 208 4.45e-72 218
MsG0180006110.01.T01 MTR_1g114690 50.235 213 103 2 1 213 1 210 3.26e-69 211
MsG0180006110.01.T01 MTR_1g114750 48.372 215 107 2 1 213 1 213 3.61e-68 209
MsG0180006110.01.T01 MTR_1g114690 45.850 253 84 4 1 211 1 242 4.25e-65 202
MsG0180006110.01.T01 MTR_1g115130 47.393 211 84 3 1 211 1 184 6.24e-58 182
MsG0180006110.01.T01 MTR_6g077990 52.469 162 77 0 49 210 26 187 3.76e-56 177
MsG0180006110.01.T01 MTR_6g077990 53.165 158 74 0 53 210 31 188 4.52e-56 177
MsG0180006110.01.T01 MTR_8g100065 56.209 153 66 1 60 211 23 175 5.46e-56 176
MsG0180006110.01.T01 MTR_8g100065 56.209 153 66 1 60 211 45 197 1.90e-55 176
MsG0180006110.01.T01 MTR_6g077990 57.971 138 58 0 73 210 8 145 7.72e-53 167
MsG0180006110.01.T01 MTR_1g114680 86.000 100 14 0 111 210 53 152 6.02e-50 161
MsG0180006110.01.T01 MTR_1g114690 50.595 168 76 3 1 166 1 163 1.62e-46 153
MsG0180006110.01.T01 MTR_7g083570 35.714 182 117 0 28 209 84 265 3.75e-39 136
MsG0180006110.01.T01 MTR_8g100065 58.879 107 43 1 60 165 23 129 2.19e-37 127
MsG0180006110.01.T01 MTR_6g077990 51.240 121 59 0 49 169 26 146 3.00e-37 127
MsG0180006110.01.T01 MTR_8g100065 58.879 107 43 1 60 165 45 151 6.89e-37 126
MsG0180006110.01.T01 MTR_5g015750 81.944 72 13 0 1 72 1 72 1.02e-35 122
MsG0180006110.01.T01 MTR_8g069110 34.483 174 103 2 50 213 90 262 2.25e-34 124
MsG0180006110.01.T01 MTR_3g100750 40.580 138 79 2 71 207 109 244 5.54e-33 119
MsG0180006110.01.T01 MTR_2g076350 36.970 165 103 1 46 209 52 216 1.44e-28 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180006110.01.T01 AT5G08350 57.672 189 69 3 28 211 23 205 6.39e-73 221
MsG0180006110.01.T01 AT5G23370 53.081 211 94 1 1 211 1 206 1.26e-72 220
MsG0180006110.01.T01 AT5G23350 56.614 189 72 2 28 211 23 206 3.95e-70 213
MsG0180006110.01.T01 AT5G23360 50.000 212 91 3 1 211 1 198 1.02e-67 207
MsG0180006110.01.T01 AT4G01600 40.000 170 94 2 46 207 5 174 3.98e-40 136
MsG0180006110.01.T01 AT4G01600 37.000 200 117 3 16 207 15 213 6.11e-40 137
MsG0180006110.01.T01 AT5G13200 35.429 175 113 0 35 209 77 251 2.37e-38 134
MsG0180006110.01.T01 AT4G01600 36.923 195 119 3 16 207 15 208 1.07e-36 128
MsG0180006110.01.T01 AT1G28200 38.667 150 89 2 60 208 97 244 6.02e-34 122
MsG0180006110.01.T01 AT1G28200 38.667 150 89 2 60 208 97 244 6.02e-34 122
MsG0180006110.01.T01 AT2G22475 33.516 182 118 2 27 207 101 280 6.38e-33 120
MsG0180006110.01.T01 AT5G13200 32.576 132 89 0 35 166 77 208 1.63e-22 91.3
MsG0180006110.01.T01 AT4G40100 32.258 124 55 1 85 208 112 206 1.71e-18 80.9
MsG0180006110.01.T01 AT2G22475 29.268 123 87 0 27 149 101 223 6.47e-16 74.3

Find 39 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCACTCACAAAGTTGCTTTC+TGG 0.165974 1:-100258073 MsG0180006110.01.T01:CDS
TTCCTTCATGAGCTACTTAA+TGG 0.213634 1:-100258736 MsG0180006110.01.T01:CDS
GCGTAGATGGTTTCGACTTC+TGG 0.218018 1:-100257818 MsG0180006110.01.T01:CDS
AAGATAACAGATACAGTAAA+AGG 0.228633 1:-100258251 MsG0180006110.01.T01:CDS
TTTACTGTATCTGTTATCTT+TGG 0.247894 1:+100258254 None:intergenic
TCCTCCAACTTGAATAATTC+TGG 0.255353 1:+100258211 None:intergenic
AGATACTTGGCTGATTCTTC+TGG 0.277973 1:-100258670 MsG0180006110.01.T01:CDS
ACTCTAATCAATTCTCCTTT+TGG 0.287784 1:+100258023 None:intergenic
ATACAGTAAAAGGGAAATTA+AGG 0.314014 1:-100258241 MsG0180006110.01.T01:CDS
CTGACTAAGATGAACATGTT+TGG 0.338683 1:-100258499 MsG0180006110.01.T01:CDS
TGTTACTTATCAACCACATT+AGG 0.368586 1:-100258122 MsG0180006110.01.T01:CDS
TGACTAAGATGAACATGTTT+GGG 0.379362 1:-100258498 MsG0180006110.01.T01:CDS
GATGAACATGTTTGGGAGAA+AGG 0.393124 1:-100258491 MsG0180006110.01.T01:CDS
ATTGATTAGAGTTCTCTATA+AGG 0.399862 1:-100258012 MsG0180006110.01.T01:intron
AGTAAAAGGGAAATTAAGGT+TGG 0.443877 1:-100258237 MsG0180006110.01.T01:CDS
ATGAACATGTTTGGGAGAAA+GGG 0.454867 1:-100258490 MsG0180006110.01.T01:CDS
ATCACCTCAACTCATTCAGT+TGG 0.473136 1:-100258706 MsG0180006110.01.T01:CDS
ATAGAAATAGTCAGCGTAGA+TGG 0.474979 1:-100257831 MsG0180006110.01.T01:CDS
ATGAAGAGGAGGCCAGCTAT+AGG 0.476519 1:+100258098 None:intergenic
CTGTAACCTGCAGTGAGACT+TGG 0.489945 1:-100258278 MsG0180006110.01.T01:intron
AGAAAACTTATATCTTCAGC+AGG 0.492693 1:-100257773 MsG0180006110.01.T01:CDS
GGAGCCAGAATTATTCAAGT+TGG 0.504215 1:-100258215 MsG0180006110.01.T01:CDS
GTAAAAGGGAAATTAAGGTT+GGG 0.509520 1:-100258236 MsG0180006110.01.T01:CDS
ATCAAGATCTCGTCACCAAA+AGG 0.523407 1:-100258038 MsG0180006110.01.T01:CDS
GCCAGAATTATTCAAGTTGG+AGG 0.527943 1:-100258212 MsG0180006110.01.T01:CDS
TCACCTCAACTCATTCAGTT+GGG 0.537734 1:-100258705 MsG0180006110.01.T01:CDS
AGATAACAGATACAGTAAAA+GGG 0.540258 1:-100258250 MsG0180006110.01.T01:CDS
GTGCATGCAGTCCGAGAGCA+TGG 0.564348 1:-100258457 MsG0180006110.01.T01:intron
CTGATTACATACCATGCTCT+CGG 0.564630 1:+100258446 None:intergenic
ATGTTTGGGAGAAAGGGTGA+TGG 0.565214 1:-100258484 MsG0180006110.01.T01:CDS
TCCATTACAAAATCAAAGCA+AGG 0.583726 1:-100258634 MsG0180006110.01.T01:intron
TTCCATTAAGTAGCTCATGA+AGG 0.584791 1:+100258734 None:intergenic
ACCACATTAGGTCCTATAGC+TGG 0.588201 1:-100258110 MsG0180006110.01.T01:CDS
GAAGTCATCAAAGAGATACT+TGG 0.597294 1:-100258683 MsG0180006110.01.T01:CDS
CCAGAAAGCAACTTTGTGAG+TGG 0.608051 1:+100258073 None:intergenic
CTTTGTGAGTGGATATGAAG+AGG 0.608902 1:+100258084 None:intergenic
GCCAGCTATAGGACCTAATG+TGG 0.654715 1:+100258109 None:intergenic
TGTGAGTGGATATGAAGAGG+AGG 0.670894 1:+100258087 None:intergenic
CTTCCCAACTGAATGAGTTG+AGG 0.692685 1:+100258702 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATATAATTTAATTCATCA+TGG - Chr1:100257952-100257971 MsG0180006110.01.T01:intron 10.0%
!! ATGATGTATAATTTGAACTT+TGG - Chr1:100258156-100258175 MsG0180006110.01.T01:CDS 20.0%
!!! AAATACAGTTTTGTTAATGT+AGG + Chr1:100257911-100257930 None:intergenic 20.0%
!!! AATGAAGTTTTAACTGATAA+TGG - Chr1:100258195-100258214 MsG0180006110.01.T01:CDS 20.0%
!!! ATGGTCATTTTTATATTTTC+AGG - Chr1:100257971-100257990 MsG0180006110.01.T01:intron 20.0%
!!! CTTAATTTGTTTACTATTTC+AGG - Chr1:100258584-100258603 MsG0180006110.01.T01:intron 20.0%
! AAGATAACAGATACAGTAAA+AGG - Chr1:100258258-100258277 MsG0180006110.01.T01:CDS 25.0%
! AAGTGTGAAGAAAAGATAAA+AGG + Chr1:100258567-100258586 None:intergenic 25.0%
! AATTATACATCATAGCAGTT+TGG + Chr1:100258149-100258168 None:intergenic 25.0%
! AGATAACAGATACAGTAAAA+GGG - Chr1:100258259-100258278 MsG0180006110.01.T01:CDS 25.0%
! ATACAGTAAAAGGGAAATTA+AGG - Chr1:100258268-100258287 MsG0180006110.01.T01:CDS 25.0%
! ATCAATGAAAAATTGAAGGT+TGG + Chr1:100258102-100258121 None:intergenic 25.0%
! ATTGATTAGAGTTCTCTATA+AGG - Chr1:100258497-100258516 MsG0180006110.01.T01:CDS 25.0%
! TGGAATCAATGAAAAATTGA+AGG + Chr1:100258106-100258125 None:intergenic 25.0%
! TTTACTGTATCTGTTATCTT+TGG + Chr1:100258258-100258277 None:intergenic 25.0%
!! ATTTCTATGTACTTTTCTGA+AGG + Chr1:100258666-100258685 None:intergenic 25.0%
AAACTACTATACAATGCTCT+TGG + Chr1:100258126-100258145 None:intergenic 30.0%
AGAAAACTTATATCTTCAGC+AGG - Chr1:100258736-100258755 MsG0180006110.01.T01:CDS 30.0%
AGTAAAAGGGAAATTAAGGT+TGG - Chr1:100258272-100258291 MsG0180006110.01.T01:intron 30.0%
GTAAAAGGGAAATTAAGGTT+GGG - Chr1:100258273-100258292 MsG0180006110.01.T01:intron 30.0%
TCCATTACAAAATCAAAGCA+AGG - Chr1:100257875-100257894 MsG0180006110.01.T01:CDS 30.0%
TGACTAAGATGAACATGTTT+GGG - Chr1:100258011-100258030 MsG0180006110.01.T01:intron 30.0%
! ACTCTAATCAATTCTCCTTT+TGG + Chr1:100258489-100258508 None:intergenic 30.0%
! TGTTACTTATCAACCACATT+AGG - Chr1:100258387-100258406 MsG0180006110.01.T01:intron 30.0%
!! ACCTTGCTTTGATTTTGTAA+TGG + Chr1:100257879-100257898 None:intergenic 30.0%
AATTTGAACTTTGGCGTGAT+TGG - Chr1:100258165-100258184 MsG0180006110.01.T01:CDS 35.0%
ATAGAAATAGTCAGCGTAGA+TGG - Chr1:100258678-100258697 MsG0180006110.01.T01:CDS 35.0%
ATGAACATGTTTGGGAGAAA+GGG - Chr1:100258019-100258038 MsG0180006110.01.T01:CDS 35.0%
CTGACTAAGATGAACATGTT+TGG - Chr1:100258010-100258029 MsG0180006110.01.T01:intron 35.0%
GAAGTCATCAAAGAGATACT+TGG - Chr1:100257826-100257845 MsG0180006110.01.T01:CDS 35.0%
TCCTCCAACTTGAATAATTC+TGG + Chr1:100258301-100258320 None:intergenic 35.0%
TTCCATTAAGTAGCTCATGA+AGG + Chr1:100257778-100257797 None:intergenic 35.0%
TTCCTTCATGAGCTACTTAA+TGG - Chr1:100257773-100257792 MsG0180006110.01.T01:CDS 35.0%
! ACATGCTGTATCTTTTCATG+TGG + Chr1:100258618-100258637 None:intergenic 35.0%
!! AAGGAATGAGAGCATTTACA+TGG + Chr1:100258548-100258567 None:intergenic 35.0%
!!! GCTTCTTCACATTTTGACTT+TGG + Chr1:100258644-100258663 None:intergenic 35.0%
ATCAAGATCTCGTCACCAAA+AGG - Chr1:100258471-100258490 MsG0180006110.01.T01:CDS 40.0%
ATCACCTCAACTCATTCAGT+TGG - Chr1:100257803-100257822 MsG0180006110.01.T01:CDS 40.0%
CTGATTACATACCATGCTCT+CGG + Chr1:100258066-100258085 None:intergenic 40.0%
CTTTGTGAGTGGATATGAAG+AGG + Chr1:100258428-100258447 None:intergenic 40.0%
GATGAACATGTTTGGGAGAA+AGG - Chr1:100258018-100258037 MsG0180006110.01.T01:CDS 40.0%
GGAGCCAGAATTATTCAAGT+TGG - Chr1:100258294-100258313 MsG0180006110.01.T01:intron 40.0%
TCACCTCAACTCATTCAGTT+GGG - Chr1:100257804-100257823 MsG0180006110.01.T01:CDS 40.0%
! AACTTTTCAGCGTACAAGAC+GGG - Chr1:100258340-100258359 MsG0180006110.01.T01:intron 40.0%
! AGATACTTGGCTGATTCTTC+TGG - Chr1:100257839-100257858 MsG0180006110.01.T01:CDS 40.0%
! CAACTTTTCAGCGTACAAGA+CGG - Chr1:100258339-100258358 MsG0180006110.01.T01:intron 40.0%
!! GCCAGAATTATTCAAGTTGG+AGG - Chr1:100258297-100258316 MsG0180006110.01.T01:intron 40.0%
!!! GGTTTCGACTTCTGGTTTTT+GGG - Chr1:100258699-100258718 MsG0180006110.01.T01:CDS 40.0%
!!! TGGTTTCGACTTCTGGTTTT+TGG - Chr1:100258698-100258717 MsG0180006110.01.T01:CDS 40.0%
!!! TTTTGGTGACGAGATCTTGA+TGG + Chr1:100258472-100258491 None:intergenic 40.0%
ACCACATTAGGTCCTATAGC+TGG - Chr1:100258399-100258418 MsG0180006110.01.T01:intron 45.0%
ATGTTTGGGAGAAAGGGTGA+TGG - Chr1:100258025-100258044 MsG0180006110.01.T01:CDS 45.0%
CCAGAAAGCAACTTTGTGAG+TGG + Chr1:100258439-100258458 None:intergenic 45.0%
CTTCCCAACTGAATGAGTTG+AGG + Chr1:100257810-100257829 None:intergenic 45.0%
TGTGAGTGGATATGAAGAGG+AGG + Chr1:100258425-100258444 None:intergenic 45.0%
! ACTTTTCAGCGTACAAGACG+GGG - Chr1:100258341-100258360 MsG0180006110.01.T01:intron 45.0%
! CCACTCACAAAGTTGCTTTC+TGG - Chr1:100258436-100258455 MsG0180006110.01.T01:intron 45.0%
!! TGAATTAAATTATATTAAAT+TGG + Chr1:100257949-100257968 None:intergenic 5.0%
ATGAAGAGGAGGCCAGCTAT+AGG + Chr1:100258414-100258433 None:intergenic 50.0%
CTGTAACCTGCAGTGAGACT+TGG - Chr1:100258231-100258250 MsG0180006110.01.T01:CDS 50.0%
GCCAGCTATAGGACCTAATG+TGG + Chr1:100258403-100258422 None:intergenic 50.0%
GCGTAGATGGTTTCGACTTC+TGG - Chr1:100258691-100258710 MsG0180006110.01.T01:CDS 50.0%
TTTGGTCCAAGTCTCACTGC+AGG + Chr1:100258240-100258259 None:intergenic 50.0%
GTGCATGCAGTCCGAGAGCA+TGG - Chr1:100258052-100258071 MsG0180006110.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 100257761 100258770 100257761 ID=MsG0180006110.01;Name=MsG0180006110.01
Chr1 mRNA 100257761 100258770 100257761 ID=MsG0180006110.01.T01;Parent=MsG0180006110.01;Name=MsG0180006110.01.T01;_AED=0.38;_eAED=0.40;_QI=0|0|0|1|1|1|4|0|218
Chr1 exon 100258635 100258770 100258635 ID=MsG0180006110.01.T01:exon:38174;Parent=MsG0180006110.01.T01
Chr1 exon 100258458 100258538 100258458 ID=MsG0180006110.01.T01:exon:38173;Parent=MsG0180006110.01.T01
Chr1 exon 100258013 100258287 100258013 ID=MsG0180006110.01.T01:exon:38172;Parent=MsG0180006110.01.T01
Chr1 exon 100257761 100257925 100257761 ID=MsG0180006110.01.T01:exon:38171;Parent=MsG0180006110.01.T01
Chr1 CDS 100258635 100258770 100258635 ID=MsG0180006110.01.T01:cds;Parent=MsG0180006110.01.T01
Chr1 CDS 100258458 100258538 100258458 ID=MsG0180006110.01.T01:cds;Parent=MsG0180006110.01.T01
Chr1 CDS 100258013 100258287 100258013 ID=MsG0180006110.01.T01:cds;Parent=MsG0180006110.01.T01
Chr1 CDS 100257761 100257925 100257761 ID=MsG0180006110.01.T01:cds;Parent=MsG0180006110.01.T01
Gene Sequence

>MsG0180006110.01.T01

ATGAAGACGTCATTCCTTCATGAGCTACTTAATGGAATTTCTATCACCTCAACTCATTCAGTTGGGAAGTCATCAAAGAGATACTTGGCTGATTCTTCTGGCATATACAACAAATCCATTACAAAATCAAAGCAAGGTAAATTTAATTCAGTTCTGACTAAGATGAACATGTTTGGGAGAAAGGGTGATGGTTTTGTGCATGCAGTCCGAGAGCATGTGAGACTTGGACCAAAGATAACAGATACAGTAAAAGGGAAATTAAGGTTGGGAGCCAGAATTATTCAAGTTGGAGGAATAGAGAAAGTGTTTATGCAACTTTTCAGCGTACAAGACGGGGAGAAGCTGTTGAAAGCGTCACAATGTTACTTATCAACCACATTAGGTCCTATAGCTGGCCTCCTCTTCATATCCACTCACAAAGTTGCTTTCTGGAGTGACAAATCCATCAAGATCTCGTCACCAAAAGGAGAATTGATTAGAGTTCTCTATAAGGTCTCTATTCCACATGAAAAGATACAGCATGTCAACCAAAGTCAAAATGTGAAGAAGCCTTCAGAAAAGTACATAGAAATAGTCAGCGTAGATGGTTTCGACTTCTGGTTTTTGGGTTTCTTTAATTATAAGAAAACTTATATCTTCAGCAGGCTATTACCCTAG

Protein sequence

>MsG0180006110.01.T01

MKTSFLHELLNGISITSTHSVGKSSKRYLADSSGIYNKSITKSKQGKFNSVLTKMNMFGRKGDGFVHAVREHVRLGPKITDTVKGKLRLGARIIQVGGIEKVFMQLFSVQDGEKLLKASQCYLSTTLGPIAGLLFISTHKVAFWSDKSIKISSPKGELIRVLYKVSIPHEKIQHVNQSQNVKKPSEKYIEIVSVDGFDFWFLGFFNYKKTYIFSRLLP*