AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene92165

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene92165.t1 MTR_7g113680 56.746 252 94 7 5 247 53 298 3.01e-78 239
MS.gene92165.t1 MTR_1g082660 60.352 227 72 10 11 226 8 227 1.65e-72 223
MS.gene92165.t1 MTR_3g099180 67.361 144 37 3 84 226 36 170 4.17e-62 195
MS.gene92165.t1 MTR_3g099180 67.361 144 37 3 84 226 36 170 4.36e-62 195
MS.gene92165.t1 MTR_2g023340 55.034 149 52 3 85 224 67 209 1.79e-52 171
MS.gene92165.t1 MTR_2g081630 60.241 83 32 1 102 183 21 103 2.58e-30 110
MS.gene92165.t1 MTR_2g081600 60.241 83 32 1 102 183 21 103 2.89e-30 110
MS.gene92165.t1 MTR_3g012030 41.026 78 46 0 104 181 9 86 3.93e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene92165.t1 AT1G56170 86.154 130 14 2 82 210 55 181 2.49e-78 235
MS.gene92165.t1 AT1G56170 86.154 130 14 2 82 210 55 181 2.49e-78 235
MS.gene92165.t1 AT5G63470 58.128 203 66 5 41 234 20 212 1.77e-69 215
MS.gene92165.t1 AT5G63470 58.128 203 66 5 41 234 20 212 1.77e-69 215
MS.gene92165.t1 AT1G08970 71.528 144 38 3 85 226 62 204 6.88e-69 213
MS.gene92165.t1 AT1G08970 71.528 144 38 3 85 226 62 204 6.88e-69 213
MS.gene92165.t1 AT1G08970 71.528 144 38 3 85 226 62 204 6.88e-69 213
MS.gene92165.t1 AT1G08970 71.528 144 38 3 85 226 62 204 6.88e-69 213
MS.gene92165.t1 AT1G54830 69.388 147 33 3 85 226 52 191 4.10e-68 210
MS.gene92165.t1 AT1G54830 69.388 147 33 3 85 226 52 191 4.10e-68 210
MS.gene92165.t1 AT1G54830 69.388 147 33 3 85 226 52 191 4.10e-68 210
MS.gene92165.t1 AT3G48590 65.060 166 52 3 71 233 33 195 6.95e-68 210
MS.gene92165.t1 AT5G50480 47.879 165 70 4 81 243 35 185 1.34e-47 157
MS.gene92165.t1 AT5G27910 42.222 180 84 6 79 256 15 176 2.85e-40 138
MS.gene92165.t1 AT5G50490 39.429 175 93 4 72 244 8 171 1.03e-35 126
MS.gene92165.t1 AT5G50470 48.148 108 47 2 81 182 44 148 2.73e-30 113
MS.gene92165.t1 AT5G38140 45.000 100 51 2 82 180 48 144 2.18e-26 102

Find 71 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGTGGTGGCTCCTGTTGC+TGG 0.253446 2.4:-27659811 None:intergenic
TAGAGTTGACTTTGCGATCT+TGG 0.263614 2.4:+27659471 MS.gene92165:CDS
TTTGCTCAATTTCTTGCATT+TGG 0.264134 2.4:-27659319 None:intergenic
ACTGTTCCCATGTTGGCTTC+TGG 0.277594 2.4:+27659149 MS.gene92165:CDS
TCTTCTTTCAATTCATCTCT+TGG 0.282962 2.4:-27659593 None:intergenic
TACGCGCAAGTGGGAGAGTA+TGG 0.334677 2.4:-27659358 None:intergenic
ATGCGGCTGGAGGCTGTGTT+GGG 0.338530 2.4:-27659196 None:intergenic
TATATTGCTGCATGATCAAC+TGG 0.341302 2.4:-27659731 None:intergenic
ATCAACAGCTTCAAATGTTC+TGG 0.346777 2.4:+27659291 MS.gene92165:CDS
GTTGGTGTTGCTGCTGTTGA+TGG 0.352589 2.4:-27659268 None:intergenic
GGTGGAAATGCTGTGCTTGC+TGG 0.362971 2.4:-27659247 None:intergenic
GTCCCACCACAACATCCTTT+AGG 0.406073 2.4:+27659683 MS.gene92165:CDS
AATGCGGCTGGAGGCTGTGT+TGG 0.408535 2.4:-27659197 None:intergenic
TGTGGTGGGACATAATAATA+TGG 0.412277 2.4:-27659671 None:intergenic
TCAGCTGGAGCACCGATTAT+CGG 0.426072 2.4:-27659644 None:intergenic
CAACATCCTTTAGGTCCTAC+AGG 0.429195 2.4:+27659692 MS.gene92165:CDS
AAGCCTACTATTCCGATAAT+CGG 0.435007 2.4:+27659632 MS.gene92165:CDS
AGTGAGAAGAATAGACCATT+TGG 0.449073 2.4:-27659121 None:intergenic
GTGCTTGCTGGTATGCGAAT+TGG 0.457941 2.4:-27659235 None:intergenic
CCACAGGAGGTCGAGGCTGC+TGG 0.460527 2.4:-27659760 None:intergenic
AAGTGCACACATCCAGCAAC+AGG 0.468963 2.4:+27659799 MS.gene92165:CDS
TCAACAGCTTCAAATGTTCT+GGG 0.490507 2.4:+27659292 MS.gene92165:CDS
GCTGGAGGCTGTGTTGGGGT+AGG 0.495800 2.4:-27659191 None:intergenic
CTCCTGTGGCTTTCATGCCA+TGG 0.498225 2.4:+27659774 MS.gene92165:CDS
CGCACCAGGTACTAGCCAAA+TGG 0.499512 2.4:+27659106 MS.gene92165:CDS
GCACCGATTATCGGAATAGT+AGG 0.501513 2.4:-27659635 None:intergenic
ATCATCCCTGTAGGACCTAA+AGG 0.501857 2.4:-27659698 None:intergenic
GAGCTTCTGCTGAAATCATC+CGG 0.503953 2.4:-27659412 None:intergenic
GAGTCTGTCTGTGGCTGTTG+TGG 0.506073 2.4:-27659827 None:intergenic
CTACCTGACTGTTCCCATGT+TGG 0.506876 2.4:+27659142 MS.gene92165:CDS
AGGTCCTACAGGGATGATCA+TGG 0.513342 2.4:+27659703 MS.gene92165:CDS
ATGAAAGCCACAGGAGGTCG+AGG 0.520693 2.4:-27659767 None:intergenic
AGAGATGAATTGAAAGAAGA+GGG 0.526767 2.4:+27659596 MS.gene92165:CDS
TAATAATATGGAATATCAGC+TGG 0.527976 2.4:-27659659 None:intergenic
TCCTCTTGTTCTCTTCAGTG+TGG 0.538251 2.4:-27659496 None:intergenic
TCTGTCTGTGGCTGTTGTGG+TGG 0.546304 2.4:-27659824 None:intergenic
TGAAAGCCGATGAAGATGTC+CGG 0.548255 2.4:+27659393 MS.gene92165:CDS
AAGCCAACATGGGAACAGTC+AGG 0.549822 2.4:-27659145 None:intergenic
GAATTGAAAGAAGAGGGGCT+TGG 0.553111 2.4:+27659602 MS.gene92165:CDS
CTTGCTGGTATGCGAATTGG+TGG 0.555433 2.4:-27659232 None:intergenic
GGTGTTGCTGCTGTTGATGG+TGG 0.572770 2.4:-27659265 None:intergenic
AATCATCCGGACATCTTCAT+CGG 0.573019 2.4:-27659399 None:intergenic
AGGTGTGCCAGAAGCCAACA+TGG 0.576129 2.4:-27659156 None:intergenic
AAGAGATGAATTGAAAGAAG+AGG 0.576346 2.4:+27659595 MS.gene92165:CDS
GCGGAATTAGAGAATGCGGC+TGG 0.581472 2.4:-27659209 None:intergenic
TAGACCATTTGGCTAGTACC+TGG 0.582406 2.4:-27659110 None:intergenic
TCTGCGATCGGAGTCGCACC+AGG 0.583461 2.4:+27659092 MS.gene92165:CDS
GACCATGGCATGAAAGCCAC+AGG 0.584151 2.4:-27659776 None:intergenic
GAAAGAAGAGGGGCTTGGAA+TGG 0.586004 2.4:+27659607 MS.gene92165:CDS
GACCTAAAGGATGTTGTGGT+GGG 0.590318 2.4:-27659685 None:intergenic
CCAGCAGCCTCGACCTCCTG+TGG 0.590845 2.4:+27659760 MS.gene92165:CDS
GGGGTAGGAACAGCTACAGC+AGG 0.597736 2.4:-27659176 None:intergenic
GGTCCTACAGGGATGATCAT+GGG 0.598225 2.4:+27659704 MS.gene92165:CDS
TTTCCCATGATCATCCCTGT+AGG 0.601110 2.4:-27659707 None:intergenic
ACATTTGAAGCTGTTGATGT+TGG 0.601353 2.4:-27659286 None:intergenic
TGCGGCTGGAGGCTGTGTTG+GGG 0.604131 2.4:-27659195 None:intergenic
TCCACACTGAAGAGAACAAG+AGG 0.607941 2.4:+27659495 MS.gene92165:CDS
CAGCAGCAACAATCTGCGAT+CGG 0.614961 2.4:+27659080 MS.gene92165:CDS
ATTTATTAAGAGTCTGTCTG+TGG 0.628344 2.4:-27659836 None:intergenic
GTAGGACCTAAAGGATGTTG+TGG 0.634993 2.4:-27659689 None:intergenic
GAATTAGAGAATGCGGCTGG+AGG 0.643197 2.4:-27659206 None:intergenic
GGACCTAAAGGATGTTGTGG+TGG 0.645250 2.4:-27659686 None:intergenic
TGGATGTGTGCACTTGACCA+TGG 0.646696 2.4:-27659791 None:intergenic
TTGCTGGTATGCGAATTGGT+GGG 0.649667 2.4:-27659231 None:intergenic
GTGGGCGGAATTAGAGAATG+CGG 0.665564 2.4:-27659213 None:intergenic
CTGGTATGCGAATTGGTGGG+CGG 0.667066 2.4:-27659228 None:intergenic
AACATCCTTTAGGTCCTACA+GGG 0.669689 2.4:+27659693 MS.gene92165:CDS
CATGGCATGAAAGCCACAGG+AGG 0.683115 2.4:-27659773 None:intergenic
GAGATGAATTGAAAGAAGAG+GGG 0.683256 2.4:+27659597 MS.gene92165:CDS
GGTGTGCCAGAAGCCAACAT+GGG 0.687320 2.4:-27659155 None:intergenic
ATATTGCTGCATGATCAACT+GGG 0.690297 2.4:-27659730 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATGATGTTTTTGATTTCT+TGG + chr2.4:27659559-27659578 MS.gene92165:CDS 20.0%
! TAATAATATGGAATATCAGC+TGG - chr2.4:27659662-27659681 None:intergenic 25.0%
AAGAGATGAATTGAAAGAAG+AGG + chr2.4:27659595-27659614 MS.gene92165:CDS 30.0%
AGAGATGAATTGAAAGAAGA+GGG + chr2.4:27659596-27659615 MS.gene92165:CDS 30.0%
TCTTCTTTCAATTCATCTCT+TGG - chr2.4:27659596-27659615 None:intergenic 30.0%
TTTGCTCAATTTCTTGCATT+TGG - chr2.4:27659322-27659341 None:intergenic 30.0%
AAGCCTACTATTCCGATAAT+CGG + chr2.4:27659632-27659651 MS.gene92165:CDS 35.0%
AGTGAGAAGAATAGACCATT+TGG - chr2.4:27659124-27659143 None:intergenic 35.0%
ATATTGCTGCATGATCAACT+GGG - chr2.4:27659733-27659752 None:intergenic 35.0%
ATCAACAGCTTCAAATGTTC+TGG + chr2.4:27659291-27659310 MS.gene92165:CDS 35.0%
GAGATGAATTGAAAGAAGAG+GGG + chr2.4:27659597-27659616 MS.gene92165:CDS 35.0%
TATATTGCTGCATGATCAAC+TGG - chr2.4:27659734-27659753 None:intergenic 35.0%
TCAACAGCTTCAAATGTTCT+GGG + chr2.4:27659292-27659311 MS.gene92165:CDS 35.0%
! ACATTTGAAGCTGTTGATGT+TGG - chr2.4:27659289-27659308 None:intergenic 35.0%
! ATTTTCTTTATACGCGCAAG+TGG - chr2.4:27659371-27659390 None:intergenic 35.0%
! TGTGGTGGGACATAATAATA+TGG - chr2.4:27659674-27659693 None:intergenic 35.0%
! TTTTCTTTATACGCGCAAGT+GGG - chr2.4:27659370-27659389 None:intergenic 35.0%
AACATCCTTTAGGTCCTACA+GGG + chr2.4:27659693-27659712 MS.gene92165:CDS 40.0%
AATCATCCGGACATCTTCAT+CGG - chr2.4:27659402-27659421 None:intergenic 40.0%
! CATGCTTTTGCAAATACGAC+TGG - chr2.4:27659437-27659456 None:intergenic 40.0%
! TAGAGTTGACTTTGCGATCT+TGG + chr2.4:27659471-27659490 MS.gene92165:CDS 40.0%
ATCATCCCTGTAGGACCTAA+AGG - chr2.4:27659701-27659720 None:intergenic 45.0%
CAACATCCTTTAGGTCCTAC+AGG + chr2.4:27659692-27659711 MS.gene92165:CDS 45.0%
GAATTGAAAGAAGAGGGGCT+TGG + chr2.4:27659602-27659621 MS.gene92165:CDS 45.0%
GACCTAAAGGATGTTGTGGT+GGG - chr2.4:27659688-27659707 None:intergenic 45.0%
GAGCTTCTGCTGAAATCATC+CGG - chr2.4:27659415-27659434 None:intergenic 45.0%
GTAGGACCTAAAGGATGTTG+TGG - chr2.4:27659692-27659711 None:intergenic 45.0%
TAGACCATTTGGCTAGTACC+TGG - chr2.4:27659113-27659132 None:intergenic 45.0%
TCCACACTGAAGAGAACAAG+AGG + chr2.4:27659495-27659514 MS.gene92165:CDS 45.0%
TCCTCTTGTTCTCTTCAGTG+TGG - chr2.4:27659499-27659518 None:intergenic 45.0%
TGAAAGCCGATGAAGATGTC+CGG + chr2.4:27659393-27659412 MS.gene92165:CDS 45.0%
TTGCTGGTATGCGAATTGGT+GGG - chr2.4:27659234-27659253 None:intergenic 45.0%
TTTCCCATGATCATCCCTGT+AGG - chr2.4:27659710-27659729 None:intergenic 45.0%
!! GCACCGATTATCGGAATAGT+AGG - chr2.4:27659638-27659657 None:intergenic 45.0%
AAGCCAACATGGGAACAGTC+AGG - chr2.4:27659148-27659167 None:intergenic 50.0%
AAGTGCACACATCCAGCAAC+AGG + chr2.4:27659799-27659818 MS.gene92165:CDS 50.0%
AGGTCCTACAGGGATGATCA+TGG + chr2.4:27659703-27659722 MS.gene92165:CDS 50.0%
CAGCAGCAACAATCTGCGAT+CGG + chr2.4:27659080-27659099 MS.gene92165:CDS 50.0%
CTACCTGACTGTTCCCATGT+TGG + chr2.4:27659142-27659161 MS.gene92165:CDS 50.0%
CTTGCTGGTATGCGAATTGG+TGG - chr2.4:27659235-27659254 None:intergenic 50.0%
GAAAGAAGAGGGGCTTGGAA+TGG + chr2.4:27659607-27659626 MS.gene92165:CDS 50.0%
GAATTAGAGAATGCGGCTGG+AGG - chr2.4:27659209-27659228 None:intergenic 50.0%
GGACCTAAAGGATGTTGTGG+TGG - chr2.4:27659689-27659708 None:intergenic 50.0%
GGTCCTACAGGGATGATCAT+GGG + chr2.4:27659704-27659723 MS.gene92165:CDS 50.0%
GTCCCACCACAACATCCTTT+AGG + chr2.4:27659683-27659702 MS.gene92165:CDS 50.0%
GTGGGCGGAATTAGAGAATG+CGG - chr2.4:27659216-27659235 None:intergenic 50.0%
TGGATGTGTGCACTTGACCA+TGG - chr2.4:27659794-27659813 None:intergenic 50.0%
! GTGCTTGCTGGTATGCGAAT+TGG - chr2.4:27659238-27659257 None:intergenic 50.0%
!! ACTGTTCCCATGTTGGCTTC+TGG + chr2.4:27659149-27659168 MS.gene92165:CDS 50.0%
!! GTTGGTGTTGCTGCTGTTGA+TGG - chr2.4:27659271-27659290 None:intergenic 50.0%
!! TCAGCTGGAGCACCGATTAT+CGG - chr2.4:27659647-27659666 None:intergenic 50.0%
AGGTGTGCCAGAAGCCAACA+TGG - chr2.4:27659159-27659178 None:intergenic 55.0%
ATGAAAGCCACAGGAGGTCG+AGG - chr2.4:27659770-27659789 None:intergenic 55.0%
CATGGCATGAAAGCCACAGG+AGG - chr2.4:27659776-27659795 None:intergenic 55.0%
CGCACCAGGTACTAGCCAAA+TGG + chr2.4:27659106-27659125 MS.gene92165:CDS 55.0%
CTCCTGTGGCTTTCATGCCA+TGG + chr2.4:27659774-27659793 MS.gene92165:CDS 55.0%
CTGGTATGCGAATTGGTGGG+CGG - chr2.4:27659231-27659250 None:intergenic 55.0%
GACCATGGCATGAAAGCCAC+AGG - chr2.4:27659779-27659798 None:intergenic 55.0%
GAGTCTGTCTGTGGCTGTTG+TGG - chr2.4:27659830-27659849 None:intergenic 55.0%
GCGGAATTAGAGAATGCGGC+TGG - chr2.4:27659212-27659231 None:intergenic 55.0%
GGTGGAAATGCTGTGCTTGC+TGG - chr2.4:27659250-27659269 None:intergenic 55.0%
GGTGTGCCAGAAGCCAACAT+GGG - chr2.4:27659158-27659177 None:intergenic 55.0%
TACGCGCAAGTGGGAGAGTA+TGG - chr2.4:27659361-27659380 None:intergenic 55.0%
TCTGTCTGTGGCTGTTGTGG+TGG - chr2.4:27659827-27659846 None:intergenic 55.0%
!! GGTGTTGCTGCTGTTGATGG+TGG - chr2.4:27659268-27659287 None:intergenic 55.0%
AATGCGGCTGGAGGCTGTGT+TGG - chr2.4:27659200-27659219 None:intergenic 60.0%
ATGCGGCTGGAGGCTGTGTT+GGG - chr2.4:27659199-27659218 None:intergenic 60.0%
GGGGTAGGAACAGCTACAGC+AGG - chr2.4:27659179-27659198 None:intergenic 60.0%
GTTGTGGTGGCTCCTGTTGC+TGG - chr2.4:27659814-27659833 None:intergenic 60.0%
GCTGGAGGCTGTGTTGGGGT+AGG - chr2.4:27659194-27659213 None:intergenic 65.0%
TCTGCGATCGGAGTCGCACC+AGG + chr2.4:27659092-27659111 MS.gene92165:CDS 65.0%
TGCGGCTGGAGGCTGTGTTG+GGG - chr2.4:27659198-27659217 None:intergenic 65.0%
CCACAGGAGGTCGAGGCTGC+TGG - chr2.4:27659763-27659782 None:intergenic 70.0%
CCAGCAGCCTCGACCTCCTG+TGG + chr2.4:27659760-27659779 MS.gene92165:CDS 70.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 27659056 27659853 27659056 ID=MS.gene92165
chr2.4 mRNA 27659056 27659853 27659056 ID=MS.gene92165.t1;Parent=MS.gene92165
chr2.4 exon 27659056 27659853 27659056 ID=MS.gene92165.t1.exon1;Parent=MS.gene92165.t1
chr2.4 CDS 27659056 27659853 27659056 ID=cds.MS.gene92165.t1;Parent=MS.gene92165.t1
Gene Sequence

>MS.gene92165

ATGGATAATTCAGATCAGATTCAACAGCAGCAACAATCTGCGATCGGAGTCGCACCAGGTACTAGCCAAATGGTCTATTCTTCTCACTACCTGACTGTTCCCATGTTGGCTTCTGGCACACCTGCTGTAGCTGTTCCTACCCCAACACAGCCTCCAGCCGCATTCTCTAATTCCGCCCACCAATTCGCATACCAGCAAGCACAGCATTTCCACCATCAACAGCAGCAACACCAACATCAACAGCTTCAAATGTTCTGGGCAAACCAAATGCAAGAAATTGAGCAAACATTCGACTTTAAAAACCATACTCTCCCACTTGCGCGTATAAAGAAAATAATGAAAGCCGATGAAGATGTCCGGATGATTTCAGCAGAAGCTCCAGTCGTATTTGCAAAAGCATGTGAAATGTTTATATTAGAGTTGACTTTGCGATCTTGGATCCACACTGAAGAGAACAAGAGGAGAACGCTACAAAAGAATGACGTAGCAGCAGCTATTGCAAGAAATGATGTTTTTGATTTCTTGGTTGATATCATTCCAAGAGATGAATTGAAAGAAGAGGGGCTTGGAATGGCAAAGCCTACTATTCCGATAATCGGTGCTCCAGCTGATATTCCATATTATTATGTCCCACCACAACATCCTTTAGGTCCTACAGGGATGATCATGGGAAACCCAGTTGATCATGCAGCAATATATTCTAACCAGCAGCCTCGACCTCCTGTGGCTTTCATGCCATGGTCAAGTGCACACATCCAGCAACAGGAGCCACCACAACAGCCACAGACAGACTCTTAA
Protein sequence

>MS.gene92165.t1

MDNSDQIQQQQQSAIGVAPGTSQMVYSSHYLTVPMLASGTPAVAVPTPTQPPAAFSNSAHQFAYQQAQHFHHQQQQHQHQQLQMFWANQMQEIEQTFDFKNHTLPLARIKKIMKADEDVRMISAEAPVVFAKACEMFILELTLRSWIHTEENKRRTLQKNDVAAAIARNDVFDFLVDIIPRDELKEEGLGMAKPTIPIIGAPADIPYYYVPPQHPLGPTGMIMGNPVDHAAIYSNQQPRPPVAFMPWSSAHIQQQEPPQQPQTDS