AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080047831.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080047831.01.T01 MTR_6g059530 94.089 203 12 0 1 203 1 203 2.40e-128 360
MsG0080047831.01.T01 MTR_6g059410 93.596 203 12 1 1 203 1 202 1.24e-126 355
MsG0080047831.01.T01 MTR_6g059650 55.102 196 76 5 17 203 19 211 2.27e-64 198
MsG0080047831.01.T01 MTR_6g065460 53.846 208 79 7 1 195 1 204 5.35e-56 176
MsG0080047831.01.T01 MTR_6g059760 49.524 210 89 11 1 198 1 205 1.19e-49 160
MsG0080047831.01.T01 MTR_6g065460 50.246 203 70 7 1 195 1 180 3.02e-47 153
MsG0080047831.01.T01 MTR_6g044780 44.240 217 100 11 1 201 1 212 9.15e-42 141
MsG0080047831.01.T01 MTR_6g059680 48.529 204 84 10 16 203 18 216 2.40e-41 139
MsG0080047831.01.T01 MTR_6g044810 41.395 215 109 8 1 201 1 212 1.13e-39 135
MsG0080047831.01.T01 MTR_6g045097 43.318 217 102 11 1 201 1 212 1.34e-39 135
MsG0080047831.01.T01 MTR_3g463590 43.158 190 93 7 24 203 27 211 6.76e-39 133
MsG0080047831.01.T01 MTR_6g045403 40.376 213 112 7 1 201 1 210 6.60e-37 128
MsG0080047831.01.T01 MTR_6g059730 44.444 216 103 10 1 203 1 212 1.58e-36 127
MsG0080047831.01.T01 MTR_6g009650 42.584 209 101 9 1 196 1 203 6.78e-35 122
MsG0080047831.01.T01 MTR_6g017225 40.991 222 106 12 1 203 1 216 7.58e-35 127
MsG0080047831.01.T01 MTR_6g066190 40.000 210 107 9 1 197 1 204 7.56e-33 117
MsG0080047831.01.T01 MTR_6g009563 40.704 199 102 7 8 196 12 204 2.22e-31 114
MsG0080047831.01.T01 MTR_6g066210 39.623 212 115 7 1 201 1 210 1.05e-30 112
MsG0080047831.01.T01 MTR_6g045433 37.768 233 101 12 1 203 1 219 1.83e-30 112
MsG0080047831.01.T01 MTR_6g059810 39.423 208 100 9 4 192 8 208 2.78e-30 111
MsG0080047831.01.T01 MTR_1g035770 39.320 206 105 10 6 194 7 209 1.60e-25 99.0
MsG0080047831.01.T01 MTR_6g059755 48.624 109 50 4 98 201 18 125 4.28e-25 95.5
MsG0080047831.01.T01 MTR_6g078070 32.850 207 123 8 1 195 1 203 2.24e-21 87.8
MsG0080047831.01.T01 MTR_6g078100 33.333 210 120 9 1 195 1 205 1.95e-19 82.8
MsG0080047831.01.T01 MTR_1g057110 36.667 210 96 13 1 196 1 187 3.09e-18 79.0
MsG0080047831.01.T01 MTR_6g065570 55.000 60 24 1 16 72 14 73 6.03e-16 70.5
MsG0080047831.01.T01 MTR_0100s0150 26.471 204 122 7 7 192 5 198 5.13e-14 68.2
MsG0080047831.01.T01 MTR_3g106620 30.939 181 110 8 24 196 27 200 4.76e-13 65.5
MsG0080047831.01.T01 MTR_6g078290 30.876 217 117 12 1 192 1 209 1.35e-12 64.3
MsG0080047831.01.T01 MTR_0302s0030 25.366 205 124 7 7 192 5 199 6.34e-12 62.4
MsG0080047831.01.T01 MTR_2g073010 29.146 199 131 6 1 195 6 198 1.13e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080047831.01.T01 AT1G73260 34.946 186 105 8 25 199 29 209 2.90e-20 85.1
MsG0080047831.01.T01 AT1G17860 31.694 183 106 7 21 195 24 195 1.41e-16 74.7
MsG0080047831.01.T01 AT1G73325 29.126 206 131 8 4 199 7 207 6.11e-11 60.1

Find 51 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTAAGTAATGTTGGCTTCA+TGG 0.289712 contig120end:-11729 None:intergenic
CAACTGAAAATGATCCCTTT+AGG 0.293355 contig120end:+12275 MsG0080047831.01.T01:CDS
AACTGAAAATGATCCCTTTA+GGG 0.300397 contig120end:+12276 MsG0080047831.01.T01:CDS
CCTACATCTTGGGTTGGTAT+TGG 0.301766 contig120end:+12094 MsG0080047831.01.T01:CDS
GAGACACTTGGTTCAGAATC+AGG 0.305229 contig120end:+12154 MsG0080047831.01.T01:CDS
GAAACAGTTGAAGACATAAA+TGG 0.316517 contig120end:+11800 MsG0080047831.01.T01:CDS
AAATCTTGTAGAACAGTAAC+TGG 0.355500 contig120end:-11923 None:intergenic
TGATGATTTCCCTACATCTT+GGG 0.363632 contig120end:+12084 MsG0080047831.01.T01:CDS
ACTGTTTCAGTAAAAGCTAA+TGG 0.364363 contig120end:-11785 None:intergenic
CCTGGTGCTTGTAGTGATAT+TGG 0.364762 contig120end:+12217 MsG0080047831.01.T01:CDS
AATGGAAACCCCGTATTTCC+TGG 0.375075 contig120end:+11818 MsG0080047831.01.T01:CDS
ACTCGTATGATAAATCTAAC+TGG 0.385923 contig120end:-11968 None:intergenic
GATAATATTGATGCATTTCA+AGG 0.390872 contig120end:+12118 MsG0080047831.01.T01:CDS
ATGATGATTTCCCTACATCT+TGG 0.402726 contig120end:+12083 MsG0080047831.01.T01:CDS
CTGGTGCTTGTAGTGATATT+GGG 0.426790 contig120end:+12218 MsG0080047831.01.T01:CDS
ATCATGAGCTAGCACCCATT+TGG 0.447134 contig120end:-12065 None:intergenic
ATCTCTAAAGGAGGAGGTGG+TGG 0.449806 contig120end:+11866 MsG0080047831.01.T01:CDS
GTATTTGCTACCAGGAAATA+CGG 0.450228 contig120end:-11828 None:intergenic
TCAACAAATACAACCCTAAA+GGG 0.452466 contig120end:-12289 None:intergenic
TATTTGCTACCAGGAAATAC+GGG 0.456020 contig120end:-11827 None:intergenic
GAAAGTAGGTAAAGGAAAAG+AGG 0.466771 contig120end:-11763 None:intergenic
ACAGAAAATGTAAGTAATGT+TGG 0.468729 contig120end:-11737 None:intergenic
AGATGAGAATGGATGGCGTT+TGG 0.471954 contig120end:+12249 MsG0080047831.01.T01:CDS
GATTTCCCTACATCTTGGGT+TGG 0.486617 contig120end:+12088 MsG0080047831.01.T01:CDS
CCAATACCAACCCAAGATGT+AGG 0.489601 contig120end:-12094 None:intergenic
AGTAAAAGCTAATGGAAAGT+AGG 0.489860 contig120end:-11777 None:intergenic
ATCAACAAATACAACCCTAA+AGG 0.498778 contig120end:-12290 None:intergenic
GGATTGAAGCTTGGTAAGAC+AGG 0.499062 contig120end:+11887 MsG0080047831.01.T01:CDS
GGAGGTGGTGGATTGAAGCT+TGG 0.515566 contig120end:+11878 MsG0080047831.01.T01:CDS
GGGAGGTATAGAGATGAGAA+TGG 0.518670 contig120end:+12238 MsG0080047831.01.T01:CDS
TTGGAAGATTCAGCACACTT+TGG 0.519328 contig120end:-12046 None:intergenic
CCTCCTCCTTTAGAGATAAG+TGG 0.523049 contig120end:-11860 None:intergenic
ATTGCACCACTTATCTCTAA+AGG 0.523973 contig120end:+11854 MsG0080047831.01.T01:CDS
CCATTGTTCAGTGCTCCACC+TGG 0.524555 contig120end:+12199 MsG0080047831.01.T01:CDS
AGTGTGCTGAATCTTCCAAA+TGG 0.536599 contig120end:+12050 MsG0080047831.01.T01:CDS
AGCTAATGGAAAGTAGGTAA+AGG 0.537202 contig120end:-11771 None:intergenic
CAATACCAACCCAAGATGTA+GGG 0.544334 contig120end:-12093 None:intergenic
TCATTTAAAATTGAGACACT+TGG 0.555046 contig120end:+12142 MsG0080047831.01.T01:CDS
CTTATCTCTAAAGGAGGAGG+TGG 0.573275 contig120end:+11863 MsG0080047831.01.T01:CDS
GTGTGCTGAATCTTCCAAAT+GGG 0.579792 contig120end:+12051 MsG0080047831.01.T01:CDS
CCACTTATCTCTAAAGGAGG+AGG 0.587891 contig120end:+11860 MsG0080047831.01.T01:CDS
GGTATAGAGATGAGAATGGA+TGG 0.592483 contig120end:+12242 MsG0080047831.01.T01:CDS
GCAATATAGTATTTGCTACC+AGG 0.595672 contig120end:-11836 None:intergenic
CCAATATCACTACAAGCACC+AGG 0.612889 contig120end:-12217 None:intergenic
AGTAGGTAAAGGAAAAGAGG+AGG 0.615363 contig120end:-11760 None:intergenic
CCAGGTGGAGCACTGAACAA+TGG 0.632227 contig120end:-12199 None:intergenic
GCACCACTTATCTCTAAAGG+AGG 0.639013 contig120end:+11857 MsG0080047831.01.T01:CDS
ATTTGCTACCAGGAAATACG+GGG 0.675453 contig120end:-11826 None:intergenic
GTGCTTGTAGTGATATTGGG+AGG 0.713327 contig120end:+12221 MsG0080047831.01.T01:CDS
ATATCACTACAAGCACCAGG+TGG 0.748505 contig120end:-12214 None:intergenic
TTTATCATACGAGTAAAACG+TGG 0.798123 contig120end:+11977 MsG0080047831.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACAGAAAATGTAAGTAATGT+TGG - contig120end:11740-11759 None:intergenic 25.0%
! GATAATATTGATGCATTTCA+AGG + contig120end:12118-12137 MsG0080047831.01.T01:CDS 25.0%
!! TCATTTAAAATTGAGACACT+TGG + contig120end:12142-12161 MsG0080047831.01.T01:CDS 25.0%
!!! TGTTCTACAAGATTTTAATG+AGG + contig120end:11931-11950 MsG0080047831.01.T01:CDS 25.0%
AAATCTTGTAGAACAGTAAC+TGG - contig120end:11926-11945 None:intergenic 30.0%
AACTGAAAATGATCCCTTTA+GGG + contig120end:12276-12295 MsG0080047831.01.T01:CDS 30.0%
ACTCGTATGATAAATCTAAC+TGG - contig120end:11971-11990 None:intergenic 30.0%
ACTGTTTCAGTAAAAGCTAA+TGG - contig120end:11788-11807 None:intergenic 30.0%
AGTAAAAGCTAATGGAAAGT+AGG - contig120end:11780-11799 None:intergenic 30.0%
ATCAACAAATACAACCCTAA+AGG - contig120end:12293-12312 None:intergenic 30.0%
GAAACAGTTGAAGACATAAA+TGG + contig120end:11800-11819 MsG0080047831.01.T01:CDS 30.0%
TCAACAAATACAACCCTAAA+GGG - contig120end:12292-12311 None:intergenic 30.0%
TTTATCATACGAGTAAAACG+TGG + contig120end:11977-11996 MsG0080047831.01.T01:CDS 30.0%
! TAAAGGGATCATTTTCAGTT+GGG - contig120end:12276-12295 None:intergenic 30.0%
!! GATTTTAATGAGGTTGTTAG+AGG + contig120end:11941-11960 MsG0080047831.01.T01:CDS 30.0%
AGCTAATGGAAAGTAGGTAA+AGG - contig120end:11774-11793 None:intergenic 35.0%
ATGATGATTTCCCTACATCT+TGG + contig120end:12083-12102 MsG0080047831.01.T01:CDS 35.0%
ATTGCACCACTTATCTCTAA+AGG + contig120end:11854-11873 MsG0080047831.01.T01:CDS 35.0%
CAACTGAAAATGATCCCTTT+AGG + contig120end:12275-12294 MsG0080047831.01.T01:CDS 35.0%
GAAAGTAGGTAAAGGAAAAG+AGG - contig120end:11766-11785 None:intergenic 35.0%
TGATGATTTCCCTACATCTT+GGG + contig120end:12084-12103 MsG0080047831.01.T01:CDS 35.0%
! CTAAAGGGATCATTTTCAGT+TGG - contig120end:12277-12296 None:intergenic 35.0%
! GCAATATAGTATTTGCTACC+AGG - contig120end:11839-11858 None:intergenic 35.0%
! GTATTTGCTACCAGGAAATA+CGG - contig120end:11831-11850 None:intergenic 35.0%
! TATTTGCTACCAGGAAATAC+GGG - contig120end:11830-11849 None:intergenic 35.0%
!!! TACAGCTTTTTCAGATTCAG+TGG - contig120end:12317-12336 None:intergenic 35.0%
AGTAGGTAAAGGAAAAGAGG+AGG - contig120end:11763-11782 None:intergenic 40.0%
AGTGTGCTGAATCTTCCAAA+TGG + contig120end:12050-12069 MsG0080047831.01.T01:CDS 40.0%
CAATACCAACCCAAGATGTA+GGG - contig120end:12096-12115 None:intergenic 40.0%
CTGGTGCTTGTAGTGATATT+GGG + contig120end:12218-12237 MsG0080047831.01.T01:CDS 40.0%
GGTATAGAGATGAGAATGGA+TGG + contig120end:12242-12261 MsG0080047831.01.T01:CDS 40.0%
GTGTGCTGAATCTTCCAAAT+GGG + contig120end:12051-12070 MsG0080047831.01.T01:CDS 40.0%
TTGGAAGATTCAGCACACTT+TGG - contig120end:12049-12068 None:intergenic 40.0%
! ATTTGCTACCAGGAAATACG+GGG - contig120end:11829-11848 None:intergenic 40.0%
AATGGAAACCCCGTATTTCC+TGG + contig120end:11818-11837 MsG0080047831.01.T01:CDS 45.0%
AGATGAGAATGGATGGCGTT+TGG + contig120end:12249-12268 MsG0080047831.01.T01:CDS 45.0%
ATATCACTACAAGCACCAGG+TGG - contig120end:12217-12236 None:intergenic 45.0%
ATCATGAGCTAGCACCCATT+TGG - contig120end:12068-12087 None:intergenic 45.0%
CCAATACCAACCCAAGATGT+AGG - contig120end:12097-12116 None:intergenic 45.0%
CCAATATCACTACAAGCACC+AGG - contig120end:12220-12239 None:intergenic 45.0%
CCTGGTGCTTGTAGTGATAT+TGG + contig120end:12217-12236 MsG0080047831.01.T01:CDS 45.0%
GAGACACTTGGTTCAGAATC+AGG + contig120end:12154-12173 MsG0080047831.01.T01:CDS 45.0%
GATTTCCCTACATCTTGGGT+TGG + contig120end:12088-12107 MsG0080047831.01.T01:CDS 45.0%
GGATTGAAGCTTGGTAAGAC+AGG + contig120end:11887-11906 MsG0080047831.01.T01:CDS 45.0%
GTGCTTGTAGTGATATTGGG+AGG + contig120end:12221-12240 MsG0080047831.01.T01:CDS 45.0%
! CCACTTATCTCTAAAGGAGG+AGG + contig120end:11860-11879 MsG0080047831.01.T01:CDS 45.0%
! CCTCCTCCTTTAGAGATAAG+TGG - contig120end:11863-11882 None:intergenic 45.0%
! CTTATCTCTAAAGGAGGAGG+TGG + contig120end:11863-11882 MsG0080047831.01.T01:CDS 45.0%
! GCACCACTTATCTCTAAAGG+AGG + contig120end:11857-11876 MsG0080047831.01.T01:CDS 45.0%
! GGGAGGTATAGAGATGAGAA+TGG + contig120end:12238-12257 MsG0080047831.01.T01:CDS 45.0%
!! CCTACATCTTGGGTTGGTAT+TGG + contig120end:12094-12113 MsG0080047831.01.T01:CDS 45.0%
! ATCTCTAAAGGAGGAGGTGG+TGG + contig120end:11866-11885 MsG0080047831.01.T01:CDS 50.0%
CCATTGTTCAGTGCTCCACC+TGG + contig120end:12199-12218 MsG0080047831.01.T01:CDS 55.0%
!! CCAGGTGGAGCACTGAACAA+TGG - contig120end:12202-12221 None:intergenic 55.0%
!! GGAGGTGGTGGATTGAAGCT+TGG + contig120end:11878-11897 MsG0080047831.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
contig120end gene 11731 12342 11731 ID=MsG0080047831.01;Name=MsG0080047831.01
contig120end mRNA 11731 12342 11731 ID=MsG0080047831.01.T01;Parent=MsG0080047831.01;Name=MsG0080047831.01.T01;_AED=0.34;_eAED=0.34;_QI=0|-1|0|1|-1|1|1|0|203
contig120end exon 11731 12342 11731 ID=MsG0080047831.01.T01:exon:5009;Parent=MsG0080047831.01.T01
contig120end CDS 11731 12342 11731 ID=MsG0080047831.01.T01:cds;Parent=MsG0080047831.01.T01
Gene Sequence

>MsG0080047831.01.T01

ATGAAGCCAACATTACTTACATTTTCTGTCCTCCTCTTTTCCTTTACCTACTTTCCATTAGCTTTTACTGAAACAGTTGAAGACATAAATGGAAACCCCGTATTTCCTGGTAGCAAATACTATATTGCACCACTTATCTCTAAAGGAGGAGGTGGTGGATTGAAGCTTGGTAAGACAGGAAACTCAGAATGTCCAGTTACTGTTCTACAAGATTTTAATGAGGTTGTTAGAGGCTTGCCAGTTAGATTTATCATACGAGTAAAACGTGGTGTTATCTTTACAACTGACGAAGTAGATATTGAGTTTGTTAAGAAACCAAAGTGTGCTGAATCTTCCAAATGGGTGCTAGCTCATGATGATTTCCCTACATCTTGGGTTGGTATTGGTGATAATATTGATGCATTTCAAGGTTCATTTAAAATTGAGACACTTGGTTCAGAATCAGGAGCATACAAGCTTGTGTATTGTCCATTGTTCAGTGCTCCACCTGGTGCTTGTAGTGATATTGGGAGGTATAGAGATGAGAATGGATGGCGTTTGGTCCCAACTGAAAATGATCCCTTTAGGGTTGTATTTGTTGATGCCACTGAATCTGAAAAAGCTGTAGTTTGA

Protein sequence

>MsG0080047831.01.T01

MKPTLLTFSVLLFSFTYFPLAFTETVEDINGNPVFPGSKYYIAPLISKGGGGGLKLGKTGNSECPVTVLQDFNEVVRGLPVRFIIRVKRGVIFTTDEVDIEFVKKPKCAESSKWVLAHDDFPTSWVGIGDNIDAFQGSFKIETLGSESGAYKLVYCPLFSAPPGACSDIGRYRDENGWRLVPTENDPFRVVFVDATESEKAVV*