AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073979

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073979.t1 MTR_7g113680 56.746 252 94 7 5 247 53 298 9.62e-79 240
MS.gene073979.t1 MTR_1g082660 60.352 227 72 10 11 226 8 227 5.74e-73 224
MS.gene073979.t1 MTR_3g099180 67.361 144 37 3 84 226 36 170 9.23e-63 196
MS.gene073979.t1 MTR_3g099180 67.361 144 37 3 84 226 36 170 9.53e-63 196
MS.gene073979.t1 MTR_2g023340 55.034 149 52 3 85 224 67 209 2.32e-52 171
MS.gene073979.t1 MTR_2g081630 60.241 83 32 1 102 183 21 103 2.67e-30 110
MS.gene073979.t1 MTR_2g081600 60.241 83 32 1 102 183 21 103 2.74e-30 110
MS.gene073979.t1 MTR_3g012030 41.026 78 46 0 104 181 9 86 3.41e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073979.t1 AT1G56170 86.154 130 14 2 82 210 55 181 5.02e-79 237
MS.gene073979.t1 AT1G56170 86.154 130 14 2 82 210 55 181 5.02e-79 237
MS.gene073979.t1 AT5G63470 58.128 203 66 5 41 234 20 212 5.65e-70 216
MS.gene073979.t1 AT5G63470 58.128 203 66 5 41 234 20 212 5.65e-70 216
MS.gene073979.t1 AT1G08970 71.528 144 38 3 85 226 62 204 1.25e-69 214
MS.gene073979.t1 AT1G08970 71.528 144 38 3 85 226 62 204 1.25e-69 214
MS.gene073979.t1 AT1G08970 71.528 144 38 3 85 226 62 204 1.25e-69 214
MS.gene073979.t1 AT1G08970 71.528 144 38 3 85 226 62 204 1.25e-69 214
MS.gene073979.t1 AT1G54830 69.388 147 33 3 85 226 52 191 1.02e-68 212
MS.gene073979.t1 AT1G54830 69.388 147 33 3 85 226 52 191 1.02e-68 212
MS.gene073979.t1 AT1G54830 69.388 147 33 3 85 226 52 191 1.02e-68 212
MS.gene073979.t1 AT3G48590 65.060 166 52 3 71 233 33 195 1.73e-68 212
MS.gene073979.t1 AT5G50480 49.091 165 68 4 81 243 35 185 2.38e-48 159
MS.gene073979.t1 AT5G27910 42.222 180 84 6 79 256 15 176 9.40e-40 136
MS.gene073979.t1 AT5G50490 39.429 175 93 4 72 244 8 171 3.59e-35 125
MS.gene073979.t1 AT5G50470 48.148 108 47 2 81 182 44 148 8.76e-31 114
MS.gene073979.t1 AT5G38140 45.000 100 51 2 82 180 48 144 8.01e-27 103

Find 71 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGTGGTGGCTCCTGTTGC+TGG 0.253446 2.1:-30297825 None:intergenic
TAGAGTTGACTTTGCGATCT+TGG 0.263614 2.1:+30297485 MS.gene073979:CDS
TTTGCTCAATTTCTTGCATT+TGG 0.264134 2.1:-30297333 None:intergenic
ACTGTTCCCATGTTGGCTTC+TGG 0.277594 2.1:+30297163 MS.gene073979:CDS
TCTTCTTTCAATTCATCTCT+TGG 0.282962 2.1:-30297607 None:intergenic
TACGCGCAAGTGGGAGAGTA+TGG 0.334677 2.1:-30297372 None:intergenic
ATGCGGCTGGAGGCTGTGTT+GGG 0.338530 2.1:-30297210 None:intergenic
TATATTGCTGCATGATCAAC+TGG 0.341302 2.1:-30297745 None:intergenic
ATCAACAGCTTCAAATGTTC+TGG 0.346777 2.1:+30297305 MS.gene073979:CDS
GTTGGTGTTGCTGCTGTTGA+TGG 0.352589 2.1:-30297282 None:intergenic
GGTGGAAATGCTGTGCTTGC+TGG 0.362971 2.1:-30297261 None:intergenic
GTCCCACCACAACATCCTTT+AGG 0.406073 2.1:+30297697 MS.gene073979:CDS
AATGCGGCTGGAGGCTGTGT+TGG 0.408535 2.1:-30297211 None:intergenic
TGTGGTGGGACATAATAATA+TGG 0.412277 2.1:-30297685 None:intergenic
TCAGCTGGAGCACCGATTAT+CGG 0.426072 2.1:-30297658 None:intergenic
CAACATCCTTTAGGTCCTAC+AGG 0.429195 2.1:+30297706 MS.gene073979:CDS
AAGCCTACTATTCCGATAAT+CGG 0.435007 2.1:+30297646 MS.gene073979:CDS
AGTGAGAAGAATAGACCATT+TGG 0.449073 2.1:-30297135 None:intergenic
GTGCTTGCTGGTATGCGAAT+TGG 0.457941 2.1:-30297249 None:intergenic
CCACAGGAGGTCGAGGCTGC+TGG 0.460527 2.1:-30297774 None:intergenic
AAGTGCACACATCCAGCAAC+AGG 0.468963 2.1:+30297813 MS.gene073979:CDS
TCAACAGCTTCAAATGTTCT+GGG 0.490507 2.1:+30297306 MS.gene073979:CDS
GCTGGAGGCTGTGTTGGGGT+AGG 0.495800 2.1:-30297205 None:intergenic
CTCCTGTGGCTTTCATGCCA+TGG 0.498225 2.1:+30297788 MS.gene073979:CDS
CGCACCAGGTACTAGCCAAA+TGG 0.499512 2.1:+30297120 MS.gene073979:CDS
GCACCGATTATCGGAATAGT+AGG 0.501513 2.1:-30297649 None:intergenic
ATCATCCCTGTAGGACCTAA+AGG 0.501857 2.1:-30297712 None:intergenic
GAGCTTCTGCTGAAATCATC+CGG 0.503953 2.1:-30297426 None:intergenic
GAGTCTGTCTGTGGCTGTTG+TGG 0.506073 2.1:-30297841 None:intergenic
CTACCTGACTGTTCCCATGT+TGG 0.506876 2.1:+30297156 MS.gene073979:CDS
AGGTCCTACAGGGATGATCA+TGG 0.513342 2.1:+30297717 MS.gene073979:CDS
ATGAAAGCCACAGGAGGTCG+AGG 0.520693 2.1:-30297781 None:intergenic
AGAGATGAATTGAAAGAAGA+GGG 0.526767 2.1:+30297610 MS.gene073979:CDS
TAATAATATGGAATATCAGC+TGG 0.527976 2.1:-30297673 None:intergenic
TCCTCTTGTTCTCTTCAGTG+TGG 0.538251 2.1:-30297510 None:intergenic
TCTGTCTGTGGCTGTTGTGG+TGG 0.546304 2.1:-30297838 None:intergenic
TGAAAGCCGATGAAGATGTC+CGG 0.548255 2.1:+30297407 MS.gene073979:CDS
AAGCCAACATGGGAACAGTC+AGG 0.549822 2.1:-30297159 None:intergenic
GAATTGAAAGAAGAGGGGCT+TGG 0.553111 2.1:+30297616 MS.gene073979:CDS
CTTGCTGGTATGCGAATTGG+TGG 0.555433 2.1:-30297246 None:intergenic
GGTGTTGCTGCTGTTGATGG+TGG 0.572770 2.1:-30297279 None:intergenic
AATCATCCGGACATCTTCAT+CGG 0.573019 2.1:-30297413 None:intergenic
AGGTGTGCCAGAAGCCAACA+TGG 0.576129 2.1:-30297170 None:intergenic
AAGAGATGAATTGAAAGAAG+AGG 0.576346 2.1:+30297609 MS.gene073979:CDS
GCGGAATTAGAGAATGCGGC+TGG 0.581472 2.1:-30297223 None:intergenic
TAGACCATTTGGCTAGTACC+TGG 0.582406 2.1:-30297124 None:intergenic
TCTGCGATCGGAGTCGCACC+AGG 0.583461 2.1:+30297106 MS.gene073979:CDS
GACCATGGCATGAAAGCCAC+AGG 0.584151 2.1:-30297790 None:intergenic
GAAAGAAGAGGGGCTTGGAA+TGG 0.586004 2.1:+30297621 MS.gene073979:CDS
GACCTAAAGGATGTTGTGGT+GGG 0.590318 2.1:-30297699 None:intergenic
CCAGCAGCCTCGACCTCCTG+TGG 0.590845 2.1:+30297774 MS.gene073979:CDS
GGGGTAGGAACAGCTACAGC+AGG 0.597736 2.1:-30297190 None:intergenic
GGTCCTACAGGGATGATCAT+GGG 0.598225 2.1:+30297718 MS.gene073979:CDS
TTTCCCATGATCATCCCTGT+AGG 0.601110 2.1:-30297721 None:intergenic
ACATTTGAAGCTGTTGATGT+TGG 0.601353 2.1:-30297300 None:intergenic
TGCGGCTGGAGGCTGTGTTG+GGG 0.604131 2.1:-30297209 None:intergenic
TCCACACTGAAGAGAACAAG+AGG 0.607941 2.1:+30297509 MS.gene073979:CDS
CAGCAGCAACAATCTGCGAT+CGG 0.614961 2.1:+30297094 MS.gene073979:CDS
ATTTATTAAGAGTCTGTCTG+TGG 0.628344 2.1:-30297850 None:intergenic
GTAGGACCTAAAGGATGTTG+TGG 0.634993 2.1:-30297703 None:intergenic
GAATTAGAGAATGCGGCTGG+AGG 0.643197 2.1:-30297220 None:intergenic
GGACCTAAAGGATGTTGTGG+TGG 0.645250 2.1:-30297700 None:intergenic
TGGATGTGTGCACTTGACCA+TGG 0.646696 2.1:-30297805 None:intergenic
TTGCTGGTATGCGAATTGGT+GGG 0.649667 2.1:-30297245 None:intergenic
GTGGGCGGAATTAGAGAATG+CGG 0.665564 2.1:-30297227 None:intergenic
CTGGTATGCGAATTGGTGGG+CGG 0.667066 2.1:-30297242 None:intergenic
AACATCCTTTAGGTCCTACA+GGG 0.669689 2.1:+30297707 MS.gene073979:CDS
CATGGCATGAAAGCCACAGG+AGG 0.683115 2.1:-30297787 None:intergenic
GAGATGAATTGAAAGAAGAG+GGG 0.683256 2.1:+30297611 MS.gene073979:CDS
GGTGTGCCAGAAGCCAACAT+GGG 0.687320 2.1:-30297169 None:intergenic
ATATTGCTGCATGATCAACT+GGG 0.690297 2.1:-30297744 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATGATGTTTTTGATTTCT+TGG + chr2.1:30297573-30297592 MS.gene073979:CDS 20.0%
! TAATAATATGGAATATCAGC+TGG - chr2.1:30297676-30297695 None:intergenic 25.0%
AAGAGATGAATTGAAAGAAG+AGG + chr2.1:30297609-30297628 MS.gene073979:CDS 30.0%
AGAGATGAATTGAAAGAAGA+GGG + chr2.1:30297610-30297629 MS.gene073979:CDS 30.0%
TCTTCTTTCAATTCATCTCT+TGG - chr2.1:30297610-30297629 None:intergenic 30.0%
TTTGCTCAATTTCTTGCATT+TGG - chr2.1:30297336-30297355 None:intergenic 30.0%
!!! GAGAGTATGGTTTTTAAAGT+CGG - chr2.1:30297362-30297381 None:intergenic 30.0%
AAGCCTACTATTCCGATAAT+CGG + chr2.1:30297646-30297665 MS.gene073979:CDS 35.0%
AGTGAGAAGAATAGACCATT+TGG - chr2.1:30297138-30297157 None:intergenic 35.0%
ATATTGCTGCATGATCAACT+GGG - chr2.1:30297747-30297766 None:intergenic 35.0%
ATCAACAGCTTCAAATGTTC+TGG + chr2.1:30297305-30297324 MS.gene073979:CDS 35.0%
GAGATGAATTGAAAGAAGAG+GGG + chr2.1:30297611-30297630 MS.gene073979:CDS 35.0%
TATATTGCTGCATGATCAAC+TGG - chr2.1:30297748-30297767 None:intergenic 35.0%
TCAACAGCTTCAAATGTTCT+GGG + chr2.1:30297306-30297325 MS.gene073979:CDS 35.0%
! ACATTTGAAGCTGTTGATGT+TGG - chr2.1:30297303-30297322 None:intergenic 35.0%
! ATTTTCTTTATACGCGCAAG+TGG - chr2.1:30297385-30297404 None:intergenic 35.0%
! TGTGGTGGGACATAATAATA+TGG - chr2.1:30297688-30297707 None:intergenic 35.0%
! TTTTCTTTATACGCGCAAGT+GGG - chr2.1:30297384-30297403 None:intergenic 35.0%
AACATCCTTTAGGTCCTACA+GGG + chr2.1:30297707-30297726 MS.gene073979:CDS 40.0%
AATCATCCGGACATCTTCAT+CGG - chr2.1:30297416-30297435 None:intergenic 40.0%
! CATGCTTTTGCAAATACGAC+TGG - chr2.1:30297451-30297470 None:intergenic 40.0%
! TAGAGTTGACTTTGCGATCT+TGG + chr2.1:30297485-30297504 MS.gene073979:CDS 40.0%
ATCATCCCTGTAGGACCTAA+AGG - chr2.1:30297715-30297734 None:intergenic 45.0%
CAACATCCTTTAGGTCCTAC+AGG + chr2.1:30297706-30297725 MS.gene073979:CDS 45.0%
GAATTGAAAGAAGAGGGGCT+TGG + chr2.1:30297616-30297635 MS.gene073979:CDS 45.0%
GACCTAAAGGATGTTGTGGT+GGG - chr2.1:30297702-30297721 None:intergenic 45.0%
GAGCTTCTGCTGAAATCATC+CGG - chr2.1:30297429-30297448 None:intergenic 45.0%
GTAGGACCTAAAGGATGTTG+TGG - chr2.1:30297706-30297725 None:intergenic 45.0%
TAGACCATTTGGCTAGTACC+TGG - chr2.1:30297127-30297146 None:intergenic 45.0%
TCCACACTGAAGAGAACAAG+AGG + chr2.1:30297509-30297528 MS.gene073979:CDS 45.0%
TCCTCTTGTTCTCTTCAGTG+TGG - chr2.1:30297513-30297532 None:intergenic 45.0%
TGAAAGCCGATGAAGATGTC+CGG + chr2.1:30297407-30297426 MS.gene073979:CDS 45.0%
TTGCTGGTATGCGAATTGGT+GGG - chr2.1:30297248-30297267 None:intergenic 45.0%
TTTCCCATGATCATCCCTGT+AGG - chr2.1:30297724-30297743 None:intergenic 45.0%
!! GCACCGATTATCGGAATAGT+AGG - chr2.1:30297652-30297671 None:intergenic 45.0%
AAGCCAACATGGGAACAGTC+AGG - chr2.1:30297162-30297181 None:intergenic 50.0%
AAGTGCACACATCCAGCAAC+AGG + chr2.1:30297813-30297832 MS.gene073979:CDS 50.0%
AGGTCCTACAGGGATGATCA+TGG + chr2.1:30297717-30297736 MS.gene073979:CDS 50.0%
CAGCAGCAACAATCTGCGAT+CGG + chr2.1:30297094-30297113 MS.gene073979:CDS 50.0%
CTACCTGACTGTTCCCATGT+TGG + chr2.1:30297156-30297175 MS.gene073979:CDS 50.0%
CTTGCTGGTATGCGAATTGG+TGG - chr2.1:30297249-30297268 None:intergenic 50.0%
GAAAGAAGAGGGGCTTGGAA+TGG + chr2.1:30297621-30297640 MS.gene073979:CDS 50.0%
GAATTAGAGAATGCGGCTGG+AGG - chr2.1:30297223-30297242 None:intergenic 50.0%
GGACCTAAAGGATGTTGTGG+TGG - chr2.1:30297703-30297722 None:intergenic 50.0%
GGTCCTACAGGGATGATCAT+GGG + chr2.1:30297718-30297737 MS.gene073979:CDS 50.0%
GTCCCACCACAACATCCTTT+AGG + chr2.1:30297697-30297716 MS.gene073979:CDS 50.0%
GTGGGCGGAATTAGAGAATG+CGG - chr2.1:30297230-30297249 None:intergenic 50.0%
TGGATGTGTGCACTTGACCA+TGG - chr2.1:30297808-30297827 None:intergenic 50.0%
! GTGCTTGCTGGTATGCGAAT+TGG - chr2.1:30297252-30297271 None:intergenic 50.0%
!! ACTGTTCCCATGTTGGCTTC+TGG + chr2.1:30297163-30297182 MS.gene073979:CDS 50.0%
!! GTTGGTGTTGCTGCTGTTGA+TGG - chr2.1:30297285-30297304 None:intergenic 50.0%
!! TCAGCTGGAGCACCGATTAT+CGG - chr2.1:30297661-30297680 None:intergenic 50.0%
AGGTGTGCCAGAAGCCAACA+TGG - chr2.1:30297173-30297192 None:intergenic 55.0%
ATGAAAGCCACAGGAGGTCG+AGG - chr2.1:30297784-30297803 None:intergenic 55.0%
CATGGCATGAAAGCCACAGG+AGG - chr2.1:30297790-30297809 None:intergenic 55.0%
CGCACCAGGTACTAGCCAAA+TGG + chr2.1:30297120-30297139 MS.gene073979:CDS 55.0%
CTCCTGTGGCTTTCATGCCA+TGG + chr2.1:30297788-30297807 MS.gene073979:CDS 55.0%
CTGGTATGCGAATTGGTGGG+CGG - chr2.1:30297245-30297264 None:intergenic 55.0%
GACCATGGCATGAAAGCCAC+AGG - chr2.1:30297793-30297812 None:intergenic 55.0%
GAGTCTGTCTGTGGCTGTTG+TGG - chr2.1:30297844-30297863 None:intergenic 55.0%
GCGGAATTAGAGAATGCGGC+TGG - chr2.1:30297226-30297245 None:intergenic 55.0%
GGTGGAAATGCTGTGCTTGC+TGG - chr2.1:30297264-30297283 None:intergenic 55.0%
GGTGTGCCAGAAGCCAACAT+GGG - chr2.1:30297172-30297191 None:intergenic 55.0%
TACGCGCAAGTGGGAGAGTA+TGG - chr2.1:30297375-30297394 None:intergenic 55.0%
TCTGTCTGTGGCTGTTGTGG+TGG - chr2.1:30297841-30297860 None:intergenic 55.0%
!! GGTGTTGCTGCTGTTGATGG+TGG - chr2.1:30297282-30297301 None:intergenic 55.0%
AATGCGGCTGGAGGCTGTGT+TGG - chr2.1:30297214-30297233 None:intergenic 60.0%
ATGCGGCTGGAGGCTGTGTT+GGG - chr2.1:30297213-30297232 None:intergenic 60.0%
GGGGTAGGAACAGCTACAGC+AGG - chr2.1:30297193-30297212 None:intergenic 60.0%
GTTGTGGTGGCTCCTGTTGC+TGG - chr2.1:30297828-30297847 None:intergenic 60.0%
GCTGGAGGCTGTGTTGGGGT+AGG - chr2.1:30297208-30297227 None:intergenic 65.0%
TCTGCGATCGGAGTCGCACC+AGG + chr2.1:30297106-30297125 MS.gene073979:CDS 65.0%
TGCGGCTGGAGGCTGTGTTG+GGG - chr2.1:30297212-30297231 None:intergenic 65.0%
CCACAGGAGGTCGAGGCTGC+TGG - chr2.1:30297777-30297796 None:intergenic 70.0%
CCAGCAGCCTCGACCTCCTG+TGG + chr2.1:30297774-30297793 MS.gene073979:CDS 70.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 30297070 30297867 30297070 ID=MS.gene073979
chr2.1 mRNA 30297070 30297867 30297070 ID=MS.gene073979.t1;Parent=MS.gene073979
chr2.1 exon 30297070 30297867 30297070 ID=MS.gene073979.t1.exon1;Parent=MS.gene073979.t1
chr2.1 CDS 30297070 30297867 30297070 ID=cds.MS.gene073979.t1;Parent=MS.gene073979.t1
Gene Sequence

>MS.gene073979

ATGGATAATTCAGATCAGATTCAACAGCAGCAACAATCTGCGATCGGAGTCGCACCAGGTACTAGCCAAATGGTCTATTCTTCTCACTACCTGACTGTTCCCATGTTGGCTTCTGGCACACCTGCTGTAGCTGTTCCTACCCCAACACAGCCTCCAGCCGCATTCTCTAATTCCGCCCACCAATTCGCATACCAGCAAGCACAGCATTTCCACCATCAACAGCAGCAACACCAACATCAACAGCTTCAAATGTTCTGGGCAAACCAAATGCAAGAAATTGAGCAAACATCCGACTTTAAAAACCATACTCTCCCACTTGCGCGTATAAAGAAAATAATGAAAGCCGATGAAGATGTCCGGATGATTTCAGCAGAAGCTCCAGTCGTATTTGCAAAAGCATGTGAAATGTTTATATTAGAGTTGACTTTGCGATCTTGGATCCACACTGAAGAGAACAAGAGGAGAACGCTACAAAAGAATGACGTAGCAGCAGCTATTGCAAGAAATGATGTTTTTGATTTCTTGGTTGATATCATTCCAAGAGATGAATTGAAAGAAGAGGGGCTTGGAATGGCAAAGCCTACTATTCCGATAATCGGTGCTCCAGCTGATATTCCATATTATTATGTCCCACCACAACATCCTTTAGGTCCTACAGGGATGATCATGGGAAACCCAGTTGATCATGCAGCAATATATTCTAACCAGCAGCCTCGACCTCCTGTGGCTTTCATGCCATGGTCAAGTGCACACATCCAGCAACAGGAGCCACCACAACAGCCACAGACAGACTCTTAA
Protein sequence

>MS.gene073979.t1

MDNSDQIQQQQQSAIGVAPGTSQMVYSSHYLTVPMLASGTPAVAVPTPTQPPAAFSNSAHQFAYQQAQHFHHQQQQHQHQQLQMFWANQMQEIEQTSDFKNHTLPLARIKKIMKADEDVRMISAEAPVVFAKACEMFILELTLRSWIHTEENKRRTLQKNDVAAAIARNDVFDFLVDIIPRDELKEEGLGMAKPTIPIIGAPADIPYYYVPPQHPLGPTGMIMGNPVDHAAIYSNQQPRPPVAFMPWSSAHIQQQEPPQQPQTDS