AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073913

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073913.t1 MTR_1g045470 91.620 179 15 0 1 179 10 188 8.95e-124 352
MS.gene073913.t1 MTR_7g116460 61.140 193 63 2 3 183 12 204 1.93e-78 233
MS.gene073913.t1 MTR_1g053575 66.667 174 41 4 6 178 17 174 2.34e-72 221
MS.gene073913.t1 MTR_1g019820 54.167 96 30 2 86 168 2 96 2.52e-23 92.4
MS.gene073913.t1 MTR_7g100990 34.194 155 83 6 4 148 19 164 5.91e-16 74.7
MS.gene073913.t1 MTR_7g005280 32.639 144 85 4 4 145 23 156 1.31e-15 72.8
MS.gene073913.t1 MTR_2g093810 30.726 179 101 8 4 171 22 188 1.85e-12 64.7
MS.gene073913.t1 MTR_4g089135 33.858 127 75 4 4 128 23 142 2.87e-11 61.2
MS.gene073913.t1 MTR_8g063550 30.263 152 92 8 3 148 13 156 3.90e-11 61.2
MS.gene073913.t1 MTR_8g063550 30.065 153 93 8 2 148 12 156 4.59e-11 60.8
MS.gene073913.t1 MTR_8g063550 30.065 153 93 8 2 148 12 156 5.81e-11 60.8
MS.gene073913.t1 MTR_4g101680 31.126 151 95 6 4 151 15 159 8.56e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073913.t1 AT5G13180 33.562 146 84 5 4 146 22 157 2.09e-14 69.3
MS.gene073913.t1 AT5G62380 32.026 153 95 6 4 153 15 161 6.04e-13 66.2
MS.gene073913.t1 AT5G62380 32.026 153 95 6 4 153 15 161 6.04e-13 66.2
MS.gene073913.t1 AT3G10480 32.895 152 88 8 4 149 35 178 1.50e-12 65.5
MS.gene073913.t1 AT2G24430 30.201 149 93 6 4 148 24 165 2.74e-12 64.3
MS.gene073913.t1 AT2G24430 30.201 149 93 6 4 148 24 165 2.74e-12 64.3
MS.gene073913.t1 AT5G08790 32.961 179 97 8 4 172 15 180 3.43e-12 63.5
MS.gene073913.t1 AT3G10480 32.680 153 88 8 4 149 35 179 8.25e-12 63.2
MS.gene073913.t1 AT2G33480 31.507 146 84 6 4 145 23 156 1.33e-11 62.0
MS.gene073913.t1 AT3G15510 32.468 154 89 6 4 153 25 167 1.45e-11 62.4
MS.gene073913.t1 AT3G17730 29.448 163 101 8 4 159 14 169 2.49e-11 60.8
MS.gene073913.t1 AT1G56010 27.957 186 107 11 4 179 27 195 2.53e-11 61.6
MS.gene073913.t1 AT5G63790 33.775 151 81 6 4 145 58 198 4.19e-11 60.8
MS.gene073913.t1 AT5G63790 33.775 151 81 6 4 145 68 208 4.58e-11 60.8
MS.gene073913.t1 AT5G66300 29.936 157 101 6 4 157 20 170 5.31e-11 60.5
MS.gene073913.t1 AT3G10490 30.380 158 95 8 4 154 35 184 8.53e-11 59.3

Find 39 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTGGCAGATTTCTTCTTTA+AGG 0.216337 1.3:+27017563 None:intergenic
CAAAGAATCCATGGGAGATT+TGG 0.252767 1.3:-27017641 MS.gene073913:CDS
TCTGCATAGAACATAATTAT+TGG 0.253885 1.3:+27017252 None:intergenic
GCACCATTGGACTTGGTAGA+TGG 0.309802 1.3:-27017524 MS.gene073913:CDS
TAATAAAAGTAGTAACTTAC+AGG 0.326513 1.3:+27017130 None:intergenic
ACAGTGACTGCGGCAGGTTC+AGG 0.347861 1.3:+27017154 None:intergenic
TCAGGAACGACTGTCTTTCT+TGG 0.364568 1.3:+27017172 None:intergenic
AAAGAATCCATGGGAGATTT+GGG 0.379921 1.3:-27017640 MS.gene073913:CDS
TTCATTGATAAGCAATCCTT+TGG 0.384426 1.3:-27017364 MS.gene073913:intron
TTCAAGAATGGTGATATGAT+TGG 0.399692 1.3:+27017683 None:intergenic
TTGTAGAAGTTCATTATCAA+TGG 0.404907 1.3:+27017743 None:intergenic
GCAAGATCCATCCACCATCT+TGG 0.430936 1.3:+27017406 None:intergenic
CAAGATCCATCCACCATCTT+GGG 0.431083 1.3:+27017407 None:intergenic
ATTCTTGAATATGATTTGTT+CGG 0.434843 1.3:-27017669 MS.gene073913:CDS
TCAAGAATGGTGATATGATT+GGG 0.471621 1.3:+27017684 None:intergenic
TGGGAGATTTGGGAAGAGTT+CGG 0.477611 1.3:-27017630 MS.gene073913:CDS
TGTAGAAGTTCATTATCAAT+GGG 0.485791 1.3:+27017744 None:intergenic
AATCTCCCATGGATTCTTTG+CGG 0.489258 1.3:+27017644 None:intergenic
CACCATTGGACTTGGTAGAT+GGG 0.507896 1.3:-27017523 MS.gene073913:CDS
GAACAAATCATATTCAAGAA+TGG 0.524428 1.3:+27017671 None:intergenic
AACTCTTCCCAAATCTCCCA+TGG 0.530624 1.3:+27017633 None:intergenic
TCGGCACCGCAAAGAATCCA+TGG 0.544845 1.3:-27017650 MS.gene073913:CDS
ACAGGTACAGTGACTGCGGC+AGG 0.546185 1.3:+27017148 None:intergenic
AAGAGTGACACTTCCCAAGA+TGG 0.562341 1.3:-27017420 MS.gene073913:CDS
GATTGCTTATCAATGAATTG+TGG 0.566276 1.3:+27017370 None:intergenic
TCACGCGTAGCTCGCACCAT+TGG 0.571107 1.3:-27017537 MS.gene073913:CDS
ACACTTCCCAAGATGGTGGA+TGG 0.575047 1.3:-27017413 MS.gene073913:CDS
GCGAGCTACGCGTGAGCTAG+TGG 0.575601 1.3:+27017545 None:intergenic
GTAGCTCGCACCATTGGACT+TGG 0.575679 1.3:-27017531 MS.gene073913:CDS
TGCTTATCAATGAATTGTGG+AGG 0.585480 1.3:+27017373 None:intergenic
ATTGGACTTGGTAGATGGGA+AGG 0.601702 1.3:-27017519 MS.gene073913:CDS
AAAGACAAGAACCAAATCCT+CGG 0.605189 1.3:-27017468 MS.gene073913:CDS
TTCCCATCTACCAAGTCCAA+TGG 0.611326 1.3:+27017521 None:intergenic
ATGGTGATATGATTGGGCAA+AGG 0.612759 1.3:+27017690 None:intergenic
CGGCACCGCAAAGAATCCAT+GGG 0.621679 1.3:-27017649 MS.gene073913:CDS
AGATGGGAAGGTGAAGACGC+TGG 0.631377 1.3:-27017507 MS.gene073913:CDS
AGTGACACTTCCCAAGATGG+TGG 0.639769 1.3:-27017417 MS.gene073913:CDS
GGAACTTCCTACTCGTATCG+TGG 0.641732 1.3:-27017609 MS.gene073913:CDS
ACTTACAGGTACAGTGACTG+CGG 0.729652 1.3:+27017144 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATAAAAGTAGTAACTTAC+AGG + chr1.3:27017755-27017774 None:intergenic 20.0%
!!! ATTCTTGAATATGATTTGTT+CGG - chr1.3:27017213-27017232 MS.gene073913:CDS 20.0%
! GAACAAATCATATTCAAGAA+TGG + chr1.3:27017214-27017233 None:intergenic 25.0%
! TCTGCATAGAACATAATTAT+TGG + chr1.3:27017633-27017652 None:intergenic 25.0%
! TGTAGAAGTTCATTATCAAT+GGG + chr1.3:27017141-27017160 None:intergenic 25.0%
! TTGTAGAAGTTCATTATCAA+TGG + chr1.3:27017142-27017161 None:intergenic 25.0%
!! ATCTTGTGCAACAATATTTT+TGG + chr1.3:27017687-27017706 None:intergenic 25.0%
!!! TTTTGTATCTTGTTTTTTGC+AGG - chr1.3:27017607-27017626 MS.gene073913:CDS 25.0%
AAATCATGCACCAAATAACT+AGG + chr1.3:27017585-27017604 None:intergenic 30.0%
AATCATGCACCAAATAACTA+GGG + chr1.3:27017584-27017603 None:intergenic 30.0%
GATTGCTTATCAATGAATTG+TGG + chr1.3:27017515-27017534 None:intergenic 30.0%
TCAAGAATGGTGATATGATT+GGG + chr1.3:27017201-27017220 None:intergenic 30.0%
TTCAAGAATGGTGATATGAT+TGG + chr1.3:27017202-27017221 None:intergenic 30.0%
TTCATTGATAAGCAATCCTT+TGG - chr1.3:27017518-27017537 MS.gene073913:CDS 30.0%
!! TGTTGTGAATTTTGTTGTAG+AGG + chr1.3:27017170-27017189 None:intergenic 30.0%
!!! GCAACAATATTTTTGGTTAC+AGG + chr1.3:27017680-27017699 None:intergenic 30.0%
AAAGAATCCATGGGAGATTT+GGG - chr1.3:27017242-27017261 MS.gene073913:CDS 35.0%
AAAGACAAGAACCAAATCCT+CGG - chr1.3:27017414-27017433 MS.gene073913:CDS 35.0%
AGTGGCAGATTTCTTCTTTA+AGG + chr1.3:27017322-27017341 None:intergenic 35.0%
GAATCAAACGCTACAGATAT+TGG + chr1.3:27017557-27017576 None:intergenic 35.0%
GATTCTTAGCCCTAGTTATT+TGG - chr1.3:27017572-27017591 MS.gene073913:CDS 35.0%
TGCTTATCAATGAATTGTGG+AGG + chr1.3:27017512-27017531 None:intergenic 35.0%
AATCTCCCATGGATTCTTTG+CGG + chr1.3:27017241-27017260 None:intergenic 40.0%
ATGGTGATATGATTGGGCAA+AGG + chr1.3:27017195-27017214 None:intergenic 40.0%
CAAAGAATCCATGGGAGATT+TGG - chr1.3:27017241-27017260 MS.gene073913:CDS 40.0%
GCTACAGATATTGGAACCTA+GGG + chr1.3:27017548-27017567 None:intergenic 40.0%
!!! GAAAACGTTTTTTCATGCCG+AGG + chr1.3:27017434-27017453 None:intergenic 40.0%
!!! GTTTTTTCATGCCGAGGATT+TGG + chr1.3:27017428-27017447 None:intergenic 40.0%
AACTCTTCCCAAATCTCCCA+TGG + chr1.3:27017252-27017271 None:intergenic 45.0%
AAGAGTGACACTTCCCAAGA+TGG - chr1.3:27017462-27017481 MS.gene073913:CDS 45.0%
ACTTACAGGTACAGTGACTG+CGG + chr1.3:27017741-27017760 None:intergenic 45.0%
CAAGATCCATCCACCATCTT+GGG + chr1.3:27017478-27017497 None:intergenic 45.0%
CGCTACAGATATTGGAACCT+AGG + chr1.3:27017549-27017568 None:intergenic 45.0%
TCAGGAACGACTGTCTTTCT+TGG + chr1.3:27017713-27017732 None:intergenic 45.0%
TGGGAGATTTGGGAAGAGTT+CGG - chr1.3:27017252-27017271 MS.gene073913:CDS 45.0%
TTCCCATCTACCAAGTCCAA+TGG + chr1.3:27017364-27017383 None:intergenic 45.0%
! ATTGGACTTGGTAGATGGGA+AGG - chr1.3:27017363-27017382 MS.gene073913:intron 45.0%
! CACCATTGGACTTGGTAGAT+GGG - chr1.3:27017359-27017378 MS.gene073913:intron 45.0%
! GTCTTTTCCACGATACGAGT+AGG + chr1.3:27017283-27017302 None:intergenic 45.0%
AGTGACACTTCCCAAGATGG+TGG - chr1.3:27017465-27017484 MS.gene073913:CDS 50.0%
GCAAGATCCATCCACCATCT+TGG + chr1.3:27017479-27017498 None:intergenic 50.0%
GCAATCCTTTGGTAAGCCCT+AGG - chr1.3:27017529-27017548 MS.gene073913:CDS 50.0%
GGAACTTCCTACTCGTATCG+TGG - chr1.3:27017273-27017292 MS.gene073913:intron 50.0%
TGGAACCTAGGGCTTACCAA+AGG + chr1.3:27017537-27017556 None:intergenic 50.0%
! GCACCATTGGACTTGGTAGA+TGG - chr1.3:27017358-27017377 MS.gene073913:intron 50.0%
!! ACACTTCCCAAGATGGTGGA+TGG - chr1.3:27017469-27017488 MS.gene073913:CDS 50.0%
AGATGGGAAGGTGAAGACGC+TGG - chr1.3:27017375-27017394 MS.gene073913:CDS 55.0%
CGGCACCGCAAAGAATCCAT+GGG - chr1.3:27017233-27017252 MS.gene073913:CDS 55.0%
GTAGCTCGCACCATTGGACT+TGG - chr1.3:27017351-27017370 MS.gene073913:intron 55.0%
TCGGCACCGCAAAGAATCCA+TGG - chr1.3:27017232-27017251 MS.gene073913:CDS 55.0%
ACAGGTACAGTGACTGCGGC+AGG + chr1.3:27017737-27017756 None:intergenic 60.0%
ACAGTGACTGCGGCAGGTTC+AGG + chr1.3:27017731-27017750 None:intergenic 60.0%
TCACGCGTAGCTCGCACCAT+TGG - chr1.3:27017345-27017364 MS.gene073913:intron 60.0%
GCGAGCTACGCGTGAGCTAG+TGG + chr1.3:27017340-27017359 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 27017129 27017775 27017129 ID=MS.gene073913
chr1.3 mRNA 27017129 27017775 27017129 ID=MS.gene073913.t1;Parent=MS.gene073913
chr1.3 exon 27017365 27017775 27017365 ID=MS.gene073913.t1.exon1;Parent=MS.gene073913.t1
chr1.3 CDS 27017365 27017775 27017365 ID=cds.MS.gene073913.t1;Parent=MS.gene073913.t1
chr1.3 exon 27017129 27017275 27017129 ID=MS.gene073913.t1.exon2;Parent=MS.gene073913.t1
chr1.3 CDS 27017129 27017275 27017129 ID=cds.MS.gene073913.t1;Parent=MS.gene073913.t1
Gene Sequence

>MS.gene073913

GTTATCGCACCCATTGATAATGAACTTCTACAACAATTCCTCTACAACAAAATTCACAACAAACCTTTGCCCAATCATATCACCATTCTTGAATATGATTTGTTCGGCACCGCAAAGAATCCATGGGAGATTTGGGAAGAGTTCGGAACTTCCTACTCGTATCGTGGAAAAGACTTATACTTCTTTACAACCTTAAAGAAGAAATCTGCCACTAGCTCACGCGTAGCTCGCACCATTGGACTTGGTAGATGGGAAGGTGAAGACGCTGGAAAAAATATATTGAGCAAAGACAAGAACCAAATCCTCGGCATGAAAAAACGTTTTCGCTTTGAGAAGAGTGACACTTCCCAAGATGGTGGATGGATCTTGCATGAATATAGCCTCCACAATTCATTGATAAGCAATCCTTTGGTAAGCCCTAGGTTCCAATATCTGTAGCGTTTGATTCTTAGCCCTAGTTATTTGGTGCATGATTTGATTTTGTATCTTGTTTTTTGCAGGCCAATAATTATGTTCTATGCAGATTTAGAAAGAATTGCACTCACTTACCTGTAACCAAAAATATTGTTGCACAAGATAAACCAAGAAAGACAGTCGTTCCTGAACCTGCCGCAGTCACTGTACCTGTAAGTTACTACTTTTATTAA
Protein sequence

>MS.gene073913.t1

VIAPIDNELLQQFLYNKIHNKPLPNHITILEYDLFGTAKNPWEIWEEFGTSYSYRGKDLYFFTTLKKKSATSSRVARTIGLGRWEGEDAGKNILSKDKNQILGMKKRFRFEKSDTSQDGGWILHEYSLHNSLISNPLANNYVLCRFRKNCTHLPVTKNIVAQDKPRKTVVPEPAAVTVPVSYYFY