AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004601

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004601 MtrunA17_Chr1g0198751 79.954 439 29 3 12 399 51 481 0.0 699
MsaG004601 MtrunA17_Chr5g0422431 56.206 427 114 7 12 398 51 444 6.55e-154 442
MsaG004601 MtrunA17_Chr1g0198741 57.530 332 77 6 75 393 8 288 4.13e-112 330
MsaG004601 MtrunA17_Chr7g0227071 54.971 171 64 2 12 169 48 218 5.55e-61 205
MsaG004601 MtrunA17_Chr2g0282871 50.746 201 87 1 13 201 47 247 1.57e-60 198
MsaG004601 MtrunA17_Chr8g0389661 53.297 182 66 2 15 177 43 224 1.86e-60 203
MsaG004601 MtrunA17_Chr4g0046431 55.556 171 64 1 15 173 64 234 1.86e-58 193
MsaG004601 MtrunA17_Chr4g0040541 53.488 172 67 1 15 173 44 215 1.33e-55 184
MsaG004601 MtrunA17_Chr8g0367761 55.625 160 59 1 15 162 64 223 1.02e-54 181
MsaG004601 MtrunA17_Chr2g0324961 54.070 172 67 1 14 173 44 215 1.95e-50 171
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004601 AT1G25580.1 46.119 438 144 12 12 397 51 448 3.45e-107 323
MsaG004601 AT4G29230.3 55.429 175 58 1 14 168 43 217 5.84e-63 209
MsaG004601 AT4G29230.1 55.429 175 58 1 14 168 43 217 1.80e-62 209
MsaG004601 AT4G29230.2 55.172 174 58 1 15 168 43 216 1.02e-61 207
MsaG004601 AT5G14490.2 48.515 202 84 3 12 200 48 242 3.78e-58 191
MsaG004601 AT5G56620.3 52.542 177 59 3 16 168 40 215 4.87e-58 195
MsaG004601 AT5G56620.2 52.542 177 59 3 16 168 40 215 5.10e-58 195
MsaG004601 AT5G14490.4 48.515 202 84 3 12 200 48 242 5.84e-58 193
MsaG004601 AT5G14490.1 48.515 202 84 3 12 200 51 245 7.27e-58 193
MsaG004601 AT5G56620.1 52.542 177 59 3 16 168 40 215 9.36e-58 194
MsaG004601 AT5G14490.3 48.515 202 84 3 12 200 51 245 1.12e-57 192
MsaG004601 AT1G28470.1 54.651 172 66 1 14 173 72 243 2.02e-57 191
MsaG004601 AT3G01600.1 53.107 177 67 3 16 179 52 225 3.23e-57 191
MsaG004601 AT4G28500.1 52.601 173 69 1 14 173 54 226 2.51e-56 187
MsaG004601 AT1G02220.1 32.903 155 83 6 20 165 4 146 3.94e-13 70.9
MsaG004601 AT3G04420.2 32.051 156 88 6 20 166 4 150 1.08e-12 68.6
MsaG004601 AT3G04420.1 32.051 156 88 6 20 166 4 150 3.00e-12 67.8

Find 87 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGTGTCAAGGTTGAGATTT+TGG 0.158446 1:+71570519 None:intergenic
ATTTATCACTACTCTTAAAA+TGG 0.223272 1:-71572169 MsaT004601.1:CDS
CTTTCTGTATATGCTCATTT+AGG 0.224428 1:-71570671 MsaT004601.1:CDS
CCAGCAGCAGCAAGCCAAAT+TGG 0.225006 1:-71571717 MsaT004601.1:CDS
CAGTGTCAGCGTCAAGATTA+AGG 0.257120 1:+71570567 None:intergenic
CCGAGGTTTCAGGAACATTT+TGG 0.262495 1:+71571681 None:intergenic
ACAGTTGCTTCCGAGGTTTC+AGG 0.268678 1:+71571671 None:intergenic
CCTTACATGTACATGGATAT+TGG 0.284152 1:-71572534 None:intergenic
TATGATGAGATTCTTGTTCT+TGG 0.289036 1:+71571570 None:intergenic
CATCTGATCAAGAGATAATA+TGG 0.323541 1:-71572248 MsaT004601.1:CDS
GCAATCAAAGCCTATAATAC+TGG 0.327546 1:-71571982 MsaT004601.1:CDS
GCTTTGGCTTCCAGTATTAT+AGG 0.327645 1:+71571972 None:intergenic
TTCTCATTGCGAGGAGGTTC+AGG 0.331317 1:+71571611 None:intergenic
TATAGGCTTTGATTGCTCTA+TGG 0.349409 1:+71571989 None:intergenic
AGGTTCAGGCGTCACGGAAT+TGG 0.365916 1:+71571625 None:intergenic
GAGGATAGGTTTAGTCCTTC+CGG 0.373927 1:+71571901 None:intergenic
AGATTCTACCAGATCTTTCT+CGG 0.381982 1:-71570919 MsaT004601.1:CDS
GGTTCAGGCGTCACGGAATT+GGG 0.400382 1:+71571626 None:intergenic
GAAAAGCTGAGAAAACTAAC+TGG 0.402325 1:-71571814 MsaT004601.1:CDS
CCAATTTGGCTTGCTGCTGC+TGG 0.410429 1:+71571717 None:intergenic
CAGATCTTTCTCGGTTAGAA+TGG 0.419534 1:-71570910 MsaT004601.1:CDS
CGACATTCGATTAAGTCAAC+TGG 0.441693 1:-71570468 MsaT004601.1:intron
TGGAACAGAAGAGGATGAAA+AGG 0.444567 1:-71571771 MsaT004601.1:CDS
ATAGAAACTCAAACTAATGA+AGG 0.445370 1:-71570833 MsaT004601.1:CDS
CAGCAGCAGCAAGCCAAATT+GGG 0.449148 1:-71571716 MsaT004601.1:CDS
AGAATGGCTACTTGAAAGTC+AGG 0.455673 1:-71570894 MsaT004601.1:CDS
TGGGGAAAACGGAGAGCAAA+TGG 0.462093 1:-71570705 MsaT004601.1:CDS
TTCAGAGCCAGTCTCCGAAA+AGG 0.466169 1:-71570730 MsaT004601.1:CDS
CATCCTCTTCTGTTCCAAGA+TGG 0.472200 1:+71571777 None:intergenic
CTAAACCTATCCTCTTGAAC+GGG 0.489073 1:-71571892 MsaT004601.1:CDS
GCCAGTCTCCGAAAAGGGAT+GGG 0.491139 1:-71570724 MsaT004601.1:CDS
GGAAGCAACTGTTATAAAAG+TGG 0.494051 1:-71571660 MsaT004601.1:CDS
CATTCTAACCGAGAAAGATC+TGG 0.494095 1:+71570911 None:intergenic
CACAGGATAGCTACGTTGCG+TGG 0.497394 1:-71570330 MsaT004601.1:CDS
ACTCATCCTCAGCGTTTACC+AGG 0.499467 1:-71572129 MsaT004601.1:intron
TAAATTCATCGATGAATGGA+TGG 0.502555 1:+71572187 None:intergenic
AATTCAATAAATTCTGCGAC+AGG 0.503431 1:+71570795 None:intergenic
GCATTCACCTTACATGTACA+TGG 0.504792 1:-71572541 None:intergenic
AATGTAGGTGTTTCGCGAGA+TGG 0.508052 1:-71572030 MsaT004601.1:intron
CTGAAAGAAATCTGCGAACA+AGG 0.508582 1:+71570748 None:intergenic
GTTATGCATCAATACCATCT+TGG 0.511788 1:-71571791 MsaT004601.1:CDS
TTAACACCTCTAGGTAATCC+AGG 0.513694 1:+71572279 None:intergenic
CCGAAAAGGGATGGGGAAAA+CGG 0.514006 1:-71570716 MsaT004601.1:CDS
ACTACTCTTAAAATGGATGA+TGG 0.516095 1:-71572162 MsaT004601.1:CDS
TCAGAGCCAGTCTCCGAAAA+GGG 0.517995 1:-71570729 MsaT004601.1:CDS
GTGATAAATTCATCGATGAA+TGG 0.527452 1:+71572183 None:intergenic
CCAAAATGTTCCTGAAACCT+CGG 0.528119 1:-71571681 MsaT004601.1:CDS
ACAGAAGAGGATGAAAAGGA+TGG 0.529217 1:-71571767 MsaT004601.1:CDS
ACAGGATAGCTACGTTGCGT+GGG 0.530282 1:-71570329 MsaT004601.1:CDS
TAGGTAACACAAGAGTGGCC+TGG 0.532893 1:-71572297 MsaT004601.1:CDS
AGCCAGTCTCCGAAAAGGGA+TGG 0.533326 1:-71570725 MsaT004601.1:CDS
CATATTATCTCTTGATCAGA+TGG 0.535616 1:+71572249 None:intergenic
TTAATAGGAATTCAGCTCAC+AGG 0.535810 1:-71570347 MsaT004601.1:intron
TGGCACTTGCTTGCAAAAGT+TGG 0.539348 1:-71572228 MsaT004601.1:CDS
TAGAAACTCAAACTAATGAA+GGG 0.541977 1:-71570832 MsaT004601.1:CDS
AGAATCTCATCATAGTCCTC+AGG 0.542768 1:-71571561 MsaT004601.1:intron
CTTTCTGAAGCCCGTTCAAG+AGG 0.552172 1:+71571882 None:intergenic
GCTCTACATTTGCAGTGTCA+AGG 0.556566 1:+71570507 None:intergenic
TATTGGCGATCTCAAATGCT+TGG 0.557000 1:-71572517 MsaT004601.1:intron
CTCTTGAACGGGCTTCAGAA+AGG 0.560131 1:-71571881 MsaT004601.1:CDS
AAATTCATCGATGAATGGAT+GGG 0.565244 1:+71572188 None:intergenic
TGAAGCCCGTTCAAGAGGAT+AGG 0.565498 1:+71571887 None:intergenic
GTCACGGAATTGGGAGTGAC+TGG 0.565831 1:+71571635 None:intergenic
GGATCAAATTTAACACCTCT+AGG 0.573417 1:+71572270 None:intergenic
TTGCTTGCAAAAGTTGGTGA+AGG 0.575602 1:-71572222 MsaT004601.1:CDS
CCAGTCTCCGAAAAGGGATG+GGG 0.581156 1:-71570723 MsaT004601.1:CDS
GAACATTGCTTCTCATTGCG+AGG 0.584286 1:+71571602 None:intergenic
ACTAAACCTATCCTCTTGAA+CGG 0.585397 1:-71571893 MsaT004601.1:CDS
CTTTATATGACTCCAGAGAG+TGG 0.599269 1:-71571839 MsaT004601.1:CDS
TCCGCTGGCACAAGACCGGA+AGG 0.600544 1:-71571916 MsaT004601.1:intron
GCGAGGAGGTTCAGGCGTCA+CGG 0.600720 1:+71571619 None:intergenic
AATTCACAGCAACTTGCGGA+AGG 0.600786 1:-71570776 MsaT004601.1:CDS
TGACTTAATCGAATGTCGGA+AGG 0.609614 1:+71570473 None:intergenic
CAGTTGACTTAATCGAATGT+CGG 0.615405 1:+71570469 None:intergenic
AATTCATCGATGAATGGATG+GGG 0.621875 1:+71572189 None:intergenic
CATTGCTTCTCATTGCGAGG+AGG 0.622091 1:+71571605 None:intergenic
ATTGAATTCACAGCAACTTG+CGG 0.627276 1:-71570780 MsaT004601.1:CDS
GTTGTTAGGTAACACAAGAG+TGG 0.628897 1:-71572302 MsaT004601.1:intron
AAAAGCTGAGAAAACTAACT+GGG 0.630819 1:-71571813 MsaT004601.1:CDS
ATACCATCTTGGAACAGAAG+AGG 0.631271 1:-71571780 MsaT004601.1:CDS
CAGGATAGCTACGTTGCGTG+GGG 0.634659 1:-71570328 MsaT004601.1:CDS
AGAAACTCAAACTAATGAAG+GGG 0.644054 1:-71570831 MsaT004601.1:CDS
TGAGCATATACAGAAAGACT+AGG 0.654781 1:+71570677 None:intergenic
GATAGCTACGTTGCGTGGGG+TGG 0.658948 1:-71570325 MsaT004601.1:CDS
GAGTGGCCTGGATTACCTAG+AGG 0.709350 1:-71572285 MsaT004601.1:CDS
AGTCCACCTGGTAAACGCTG+AGG 0.726794 1:+71572123 None:intergenic
TATATGACTCCAGAGAGTGG+AGG 0.733666 1:-71571836 MsaT004601.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 71570306 71572550 71570306 ID=MsaG004601
Chr1 mRNA 71570306 71572550 71570306 ID=MsaT004601.1;Parent=MsaG004601
Chr1 exon 71570306 71570362 71570306 ID=MsaT004601.1.exon6;Parent=MsaT004601.1
Chr1 CDS 71570306 71570362 71570306 ID=cds.MsaT004601.1;Parent=MsaT004601.1
Chr1 exon 71570469 71570939 71570469 ID=MsaT004601.1.exon5;Parent=MsaT004601.1
Chr1 CDS 71570469 71570939 71570469 ID=cds.MsaT004601.1;Parent=MsaT004601.1
Chr1 exon 71571562 71571924 71571562 ID=MsaT004601.1.exon4;Parent=MsaT004601.1
Chr1 CDS 71571562 71571924 71571562 ID=cds.MsaT004601.1;Parent=MsaT004601.1
Chr1 exon 71571957 71572045 71571957 ID=MsaT004601.1.exon3;Parent=MsaT004601.1
Chr1 CDS 71571957 71572045 71571957 ID=cds.MsaT004601.1;Parent=MsaT004601.1
Chr1 exon 71572130 71572316 71572130 ID=MsaT004601.1.exon2;Parent=MsaT004601.1
Chr1 CDS 71572130 71572316 71572130 ID=cds.MsaT004601.1;Parent=MsaT004601.1
Chr1 exon 71572518 71572550 71572518 ID=MsaT004601.1.exon1;Parent=MsaT004601.1
Chr1 CDS 71572518 71572550 71572518 ID=cds.MsaT004601.1;Parent=MsaT004601.1
Gene Sequence

>MsaT004601.1

ATGTACATGGATATTGGCGATCTCAAATGCTTGGTAACACAAGAGTGGCCTGGATTACCTAGAGGTGTTAAATTTGATCCATCTGATCAAGAGATAATATGGCACTTGCTTGCAAAAGTTGGTGAAGGAAATTTAGAACCCCATCCATTCATCGATGAATTTATCACTACTCTTAAAATGGATGATGGTATTTGTTATACTCATCCTCAGCGTTTACCAGGTGTTTCGCGAGATGGAATTGCTTCACACTTTTTCCATAGAGCAATCAAAGCCTATAATACTGGAAGCCAAAGCGTCGAAAAATATGTGACCGGAAGGACTAAACCTATCCTCTTGAACGGGCTTCAGAAAGGCTGTAAAAAGATTATGGTACTTTATATGACTCCAGAGAGTGGAGGAAAAGCTGAGAAAACTAACTGGGTTATGCATCAATACCATCTTGGAACAGAAGAGGATGAAAAGGATGGAGAATATGTTATTTCTAAAGTATTTTACCAGCAGCAGCAAGCCAAATTGGGTGAAAAAGATGACCAAAATGTTCCTGAAACCTCGGAAGCAACTGTTATAAAAGTGGATCCAGTCACTCCCAATTCCGTGACGCCTGAACCTCCTCGCAATGAGAAGCAATGTTCAGATGTAGACCAAGAACAAGAATCTCATCATAGTCCTCAGATTCTACCAGATCTTTCTCGGTTAGAATGGCTACTTGAAAGTCAGGATGACTGTGAAGAGCTTCCAAAAATTGACTCGTCGACTATAGAAACTCAAACTAATGAAGGGGTCGATAACATTGACCTGTCGCAGAATTTATTGAATTCACAGCAACTTGCGGAAGGACTTTCCTTGTTCGCAGATTTCTTTCAGAGCCAGTCTCCGAAAAGGGATGGGGAAAACGGAGAGCAAATGGAACGACCTAGTCTTTCTGTATATGCTCATTTAGGAGCAGAGCAATTGAAGAAAGATATTGAAGAGTGTCAAAATCTTGAACTTAACACTACAAAGAAGAATGATATTGAAGAATGCCTTAATCTTGACGCTGACACTGAAAAAAAGAGCGATATCGAAGAGTGCCAAAATCTCAACCTTGACACTGCAAATGTAGAGCTTGACTCACAACCTTCCGACATTCGATTAAGTCAACTGGAATTCAGCTCACAGGATAGCTACGTTGCGTGGGGTGGTTACAAGACGATCAACTAA
Protein sequence

>MsaT004601.1

MYMDIGDLKCLVTQEWPGLPRGVKFDPSDQEIIWHLLAKVGEGNLEPHPFIDEFITTLKMDDGICYTHPQRLPGVSRDGIASHFFHRAIKAYNTGSQSVEKYVTGRTKPILLNGLQKGCKKIMVLYMTPESGGKAEKTNWVMHQYHLGTEEDEKDGEYVISKVFYQQQQAKLGEKDDQNVPETSEATVIKVDPVTPNSVTPEPPRNEKQCSDVDQEQESHHSPQILPDLSRLEWLLESQDDCEELPKIDSSTIETQTNEGVDNIDLSQNLLNSQQLAEGLSLFADFFQSQSPKRDGENGEQMERPSLSVYAHLGAEQLKKDIEECQNLELNTTKKNDIEECLNLDADTEKKSDIEECQNLNLDTANVELDSQPSDIRLSQLEFSSQDSYVAWGGYKTIN*