AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036506

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036506 MtrunA17_Chr7g0227071 74.900 502 21 4 1 398 1 501 0.0 707
MsaG036506 MtrunA17_Chr5g0422431 38.202 445 203 10 5 391 6 436 2.06e-93 287
MsaG036506 MtrunA17_Chr1g0198751 43.844 333 168 6 5 332 8 326 2.31e-88 275
MsaG036506 MtrunA17_Chr2g0282871 50.679 221 98 4 35 247 31 248 3.60e-67 215
MsaG036506 MtrunA17_Chr4g0046431 52.970 202 87 4 19 215 29 227 5.84e-65 210
MsaG036506 MtrunA17_Chr4g0040541 50.485 206 99 1 34 236 24 229 1.62e-63 205
MsaG036506 MtrunA17_Chr8g0367761 56.667 180 71 3 36 211 47 223 2.32e-63 204
MsaG036506 MtrunA17_Chr8g0389661 53.646 192 80 4 30 215 25 213 1.34e-61 206
MsaG036506 MtrunA17_Chr2g0324961 49.756 205 99 2 34 235 25 228 6.16e-57 188
MsaG036506 MtrunA17_Chr1g0198741 44.444 171 85 5 113 278 10 175 1.36e-35 132
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036506 AT3G01600.1 41.000 400 200 9 1 398 1 366 3.15e-87 269
MsaG036506 AT5G14490.2 50.000 260 127 3 1 260 1 257 1.03e-83 257
MsaG036506 AT5G14490.4 50.000 260 127 3 1 260 1 257 1.16e-83 259
MsaG036506 AT5G14490.3 40.404 396 196 11 1 396 4 359 2.71e-83 259
MsaG036506 AT1G25580.1 37.668 446 209 13 2 388 3 438 2.83e-83 261
MsaG036506 AT5G14490.1 49.615 260 128 3 1 260 4 260 6.78e-83 257
MsaG036506 AT4G29230.3 52.332 193 82 3 30 215 26 215 1.23e-63 210
MsaG036506 AT4G29230.1 52.332 193 82 3 30 215 26 215 3.27e-63 211
MsaG036506 AT4G29230.2 52.332 193 81 3 30 215 26 214 4.53e-63 210
MsaG036506 AT1G28470.1 49.515 206 91 4 36 233 53 253 1.26e-61 201
MsaG036506 AT4G28500.1 49.735 189 93 1 34 220 36 224 2.67e-61 200
MsaG036506 AT5G56620.3 49.495 198 84 6 30 215 20 213 8.32e-57 192
MsaG036506 AT5G56620.2 49.495 198 84 6 30 215 20 213 9.11e-57 191
MsaG036506 AT5G56620.1 49.495 198 84 6 30 215 20 213 1.70e-56 190

Find 88 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCGGTGGATTTGGAGGATT+TGG 0.165293 7:-36244215 None:intergenic
TTTCCTGTACGCGGTGGATT+TGG 0.270486 7:-36244224 None:intergenic
TCCTTCTGATGTGGAAATAT+TGG 0.291101 7:+36242516 MsaT036506.1:CDS
AAATCTCATCACACAATAAT+AGG 0.320076 7:-36245088 None:intergenic
TCCATGTTCTATTATAGCTT+TGG 0.323257 7:-36243955 None:intergenic
GATTCTGAATATCAGTTTGC+AGG 0.324041 7:-36244986 None:intergenic
GGATTTGGGTTTGGAGTCCT+TGG 0.334390 7:-36244200 None:intergenic
AACTGCTGTCCTAGATAAAC+TGG 0.335468 7:+36245217 MsaT036506.1:CDS
CCAGTCAGATTTGTAGGACT+TGG 0.338941 7:-36244033 None:intergenic
ACACATCCTGAAAATCTTCC+AGG 0.345121 7:+36242637 MsaT036506.1:CDS
TCCTCCAGATTATGATCTTT+CGG 0.348663 7:+36245250 MsaT036506.1:CDS
TTCATGCAGAATTTGACATT+TGG 0.373477 7:+36245358 MsaT036506.1:intron
GCAAACTGATATTCAGAATC+AGG 0.380819 7:+36244989 MsaT036506.1:CDS
TATCCAATTCCAGTTTATCT+AGG 0.388174 7:-36245226 None:intergenic
ACAATGAATGCATATAGTTC+TGG 0.388883 7:+36243858 MsaT036506.1:CDS
AATAGAACATGGAGAACATA+AGG 0.393301 7:+36243965 MsaT036506.1:CDS
TGTCCTAGATAAACTGGAAT+TGG 0.395411 7:+36245223 MsaT036506.1:CDS
GGATTTGGAGGATTTGGGTT+TGG 0.408606 7:-36244209 None:intergenic
CCTTGTTCTCCTTCCAATGT+TGG 0.412278 7:-36242604 None:intergenic
CAGTCTTGTGCCAGCGTACA+TGG 0.417800 7:-36243926 None:intergenic
TCTATTTACTGATTCTCAAT+TGG 0.425400 7:+36245124 MsaT036506.1:CDS
AACAACTCTGCATGGTTGGC+TGG 0.431062 7:+36245020 MsaT036506.1:CDS
CTGTGTAGGTTTCTAGTGAA+TGG 0.431292 7:+36242464 MsaT036506.1:intron
ATCGCAGGCTATGGAAAATT+CGG 0.436700 7:+36245046 MsaT036506.1:CDS
GCGGTGGATTTGGAGGATTT+GGG 0.438699 7:-36244214 None:intergenic
GACAGTATCCTTGGTTTGAT+AGG 0.443883 7:+36245391 MsaT036506.1:CDS
AAAATGCATCAGTACCATCT+AGG 0.444254 7:+36244056 MsaT036506.1:CDS
CAGGGCAGCTTGCGATTCAC+CGG 0.446866 7:-36244967 None:intergenic
AACCACGATGATGAATCTTT+CGG 0.451588 7:-36243893 None:intergenic
CCTGTACGCGGTGGATTTGG+AGG 0.456268 7:-36244221 None:intergenic
CACAAACAACTCTGCATGGT+TGG 0.457938 7:+36245016 MsaT036506.1:CDS
TCTATACGAGAATGACAGTT+TGG 0.458285 7:-36241917 None:intergenic
CGTCTTCATCAGTCCCTAGA+TGG 0.465866 7:-36244070 None:intergenic
GTTCGCGATGTTATACTGTC+AGG 0.467320 7:-36244173 None:intergenic
GACAACTCTGCATGGTTGGC+CGG 0.472780 7:+36244948 MsaT036506.1:CDS
TTGTTACACACCTCTGCAAA+TGG 0.484050 7:-36244287 None:intergenic
CTTACCGAAAGATCATAATC+TGG 0.486131 7:-36245254 None:intergenic
TAAGGGATTTAAGAAGATCA+TGG 0.488299 7:+36243983 MsaT036506.1:CDS
CTCTTCAGCTGATCAGATCA+AGG 0.488697 7:+36241871 MsaT036506.1:CDS
GTATCCTTGGTTTGATAGGC+GGG 0.489513 7:+36245395 MsaT036506.1:CDS
CATGTACGCTGGCACAAGAC+TGG 0.493768 7:+36243927 MsaT036506.1:CDS
CTTTGATTTCAATAATGGCT+AGG 0.494505 7:+36240822 None:intergenic
GGCTGGTGAATCGCAGGCTA+TGG 0.495395 7:+36245037 MsaT036506.1:CDS
CGAGGAGTTCATACCAACAT+TGG 0.496522 7:+36242591 MsaT036506.1:CDS
TCTCAAGACGACAGTATCCT+TGG 0.497503 7:+36245382 MsaT036506.1:CDS
CCAAGTCCTACAAATCTGAC+TGG 0.505991 7:+36244033 MsaT036506.1:CDS
CCTCCAAATCCACCGCGTAC+AGG 0.506008 7:+36244221 MsaT036506.1:CDS
GGAAATATTGGAGCATTTAG+CGG 0.509677 7:+36242528 MsaT036506.1:CDS
GGTTTGATAGGCGGGCTATG+AGG 0.516375 7:+36245403 MsaT036506.1:CDS
ATAGAACATGGAGAACATAA+GGG 0.517209 7:+36243966 MsaT036506.1:CDS
ACTGATGAAGACGAGAAGAA+TGG 0.528383 7:+36244080 MsaT036506.1:CDS
TTTATGCCGAGGGGAAAGCC+AGG 0.532538 7:-36242487 None:intergenic
TTAGCGGCTAAATGTGGTGT+GGG 0.532638 7:+36242544 MsaT036506.1:CDS
CACTACGAAAACAAAATGAC+AGG 0.538985 7:+36245167 MsaT036506.1:CDS
CAATAATAGGTCATCCAAGC+CGG 0.539478 7:-36245075 None:intergenic
TCCAATATTTCCACATCAGA+AGG 0.541653 7:-36242517 None:intergenic
TAGGTTTCTAGTGAATGGCC+TGG 0.544927 7:+36242469 MsaT036506.1:intron
AAAGTTTGATCCTTCTGATG+TGG 0.545313 7:+36242507 MsaT036506.1:CDS
GAATGGCTAATTAACATAAG+AGG 0.545620 7:+36241818 MsaT036506.1:CDS
TCACGACAACTCTGCATGGT+TGG 0.547089 7:+36244944 MsaT036506.1:CDS
ATGGAAAATTCGGATTATGC+CGG 0.551046 7:+36245056 MsaT036506.1:CDS
AAATTCGGATTATGCCGGCT+TGG 0.554157 7:+36245061 MsaT036506.1:CDS
TTCACTGTTGCCATTTGCAG+AGG 0.555067 7:+36244277 MsaT036506.1:CDS
AGTATCCTTGGTTTGATAGG+CGG 0.559174 7:+36245394 MsaT036506.1:CDS
AAATGCATCAGTACCATCTA+GGG 0.560385 7:+36244057 MsaT036506.1:CDS
ATGGTTGGCTGGTGAATCGC+AGG 0.562987 7:+36245031 MsaT036506.1:CDS
CCAACATTGGAAGGAGAACA+AGG 0.565627 7:+36242604 MsaT036506.1:CDS
GAATGGCCTGGCTTTCCCCT+CGG 0.583639 7:+36242481 MsaT036506.1:CDS
ATTCTGAATATCAGTTTGCA+GGG 0.585363 7:-36244985 None:intergenic
AGGATCAAACTTTATGCCGA+GGG 0.591558 7:-36242497 None:intergenic
GAGTTCATACCAACATTGGA+AGG 0.612629 7:+36242595 MsaT036506.1:CDS
AAGGATCAAACTTTATGCCG+AGG 0.614282 7:-36242498 None:intergenic
GAGCATTTAGCGGCTAAATG+TGG 0.621733 7:+36242538 MsaT036506.1:CDS
ACCAAAGCTATAATAGAACA+TGG 0.626362 7:+36243954 MsaT036506.1:CDS
ATAACACAAACAACTCTGCA+TGG 0.636499 7:+36245012 MsaT036506.1:CDS
TTTAGCGGCTAAATGTGGTG+TGG 0.639141 7:+36242543 MsaT036506.1:CDS
TAACATCGCGAACAAGTCCA+AGG 0.642484 7:+36244183 MsaT036506.1:CDS
CGACTGAAGACCATGTACGC+TGG 0.649864 7:+36243916 MsaT036506.1:CDS
ACCGAAAGATCATAATCTGG+AGG 0.651380 7:-36245251 None:intergenic
ACAGGAAAATGTGTTGACAA+TGG 0.656459 7:+36244239 MsaT036506.1:CDS
AACTCCTCGATAAACATGTG+AGG 0.657869 7:-36242577 None:intergenic
AGGATCACGACAACTCTGCA+TGG 0.659418 7:+36244940 MsaT036506.1:intron
GCTGATCAGATCAAGGATTG+CGG 0.663553 7:+36241878 MsaT036506.1:CDS
CGCCGAAAGATTCATCATCG+TGG 0.681320 7:+36243891 MsaT036506.1:CDS
AAAGCCTCACATGTTTATCG+AGG 0.687510 7:+36242573 MsaT036506.1:CDS
TAGCGGCTAAATGTGGTGTG+GGG 0.695454 7:+36242545 MsaT036506.1:CDS
ATAGCCCGCCTATCAAACCA+AGG 0.702047 7:-36245399 None:intergenic
GGATCAAACTTTATGCCGAG+GGG 0.712709 7:-36242496 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 36240836 36245423 36240836 ID=MsaG036506
Chr7 mRNA 36240836 36245423 36240836 ID=MsaT036506.1;Parent=MsaG036506
Chr7 exon 36240836 36240843 36240836 ID=MsaT036506.1.exon1;Parent=MsaT036506.1
Chr7 CDS 36240836 36240843 36240836 ID=cds.MsaT036506.1;Parent=MsaT036506.1
Chr7 exon 36241817 36241949 36241817 ID=MsaT036506.1.exon2;Parent=MsaT036506.1
Chr7 CDS 36241817 36241949 36241817 ID=cds.MsaT036506.1;Parent=MsaT036506.1
Chr7 exon 36242472 36242658 36242472 ID=MsaT036506.1.exon3;Parent=MsaT036506.1
Chr7 CDS 36242472 36242658 36242472 ID=cds.MsaT036506.1;Parent=MsaT036506.1
Chr7 exon 36243817 36244298 36243817 ID=MsaT036506.1.exon4;Parent=MsaT036506.1
Chr7 CDS 36243817 36244298 36243817 ID=cds.MsaT036506.1;Parent=MsaT036506.1
Chr7 exon 36244942 36245271 36244942 ID=MsaT036506.1.exon5;Parent=MsaT036506.1
Chr7 CDS 36244942 36245271 36244942 ID=cds.MsaT036506.1;Parent=MsaT036506.1
Chr7 exon 36245367 36245423 36245367 ID=MsaT036506.1.exon6;Parent=MsaT036506.1
Chr7 CDS 36245367 36245423 36245367 ID=cds.MsaT036506.1;Parent=MsaT036506.1
Gene Sequence

>MsaT036506.1

ATGGCTAGGGAATGGCTAATTAACATAAGAGGATTTGCAAAGAAATTGAGAAGCACTACACTCTCTTCAGCTGATCAGATCAAGGATTGCGGCGCATGTCGTGAATGTCCAAACTGTCATTCTCGTATAGACAACAGTGATGTTTCTAGTGAATGGCCTGGCTTTCCCCTCGGCATAAAGTTTGATCCTTCTGATGTGGAAATATTGGAGCATTTAGCGGCTAAATGTGGTGTGGGGAACATAAAGCCTCACATGTTTATCGAGGAGTTCATACCAACATTGGAAGGAGAACAAGGCATTTGCTATACACATCCTGAAAATCTTCCAGGTGCTAAGAAAGATGGGAGCAGTGTTCATTTCTTTCACAGAACAATGAATGCATATAGTTCTGGTCAACGAAAGCGCCGAAAGATTCATCATCGTGGTTCGACTGAAGACCATGTACGCTGGCACAAGACTGGTAAGACCAAAGCTATAATAGAACATGGAGAACATAAGGGATTTAAGAAGATCATGGTTCTGTATATAAGATCTGAGAAAGAGTCCAAGTCCTACAAATCTGACTGGAAAATGCATCAGTACCATCTAGGGACTGATGAAGACGAGAAGAATGGAGAATACGTCGTTTCAAAAATATTTTATAAGCAGAATGAGAAAAATGAAGAGAAAGCAATGGCTGAAGAACCTGACAGTATAACATCGCGAACAAGTCCAAGGACTCCAAACCCAAATCCTCCAAATCCACCGCGTACAGGAAAATGTGTTGACAATGGCAACATCAATGAAACTTCACTGTTGCCATTTGCAGAGGATCACGACAACTCTGCATGGTTGGCCGGTGAATCGCAAGCTGCCCTGCAAACTGATATTCAGAATCAGGATAACACAAACAACTCTGCATGGTTGGCTGGTGAATCGCAGGCTATGGAAAATTCGGATTATGCCGGCTTGGATGACCTATTATTGTGTGATGAGATTTTTGATTCATCTGCTCTATTTACTGATTCTCAATTGGACTCGATCAATGACCTCACTCACTACGAAAACAAAATGACAGGAAATTATAATGTATCTAGTGAAACTTCAACTGCTGTCCTAGATAAACTGGAATTGGATACTCCTCCAGATTATGATCTTTCGAATTTGACATTTGGTTCTCAAGACGACAGTATCCTTGGTTTGATAGGCGGGCTATGA
Protein sequence

>MsaT036506.1

MAREWLINIRGFAKKLRSTTLSSADQIKDCGACRECPNCHSRIDNSDVSSEWPGFPLGIKFDPSDVEILEHLAAKCGVGNIKPHMFIEEFIPTLEGEQGICYTHPENLPGAKKDGSSVHFFHRTMNAYSSGQRKRRKIHHRGSTEDHVRWHKTGKTKAIIEHGEHKGFKKIMVLYIRSEKESKSYKSDWKMHQYHLGTDEDEKNGEYVVSKIFYKQNEKNEEKAMAEEPDSITSRTSPRTPNPNPPNPPRTGKCVDNGNINETSLLPFAEDHDNSAWLAGESQAALQTDIQNQDNTNNSAWLAGESQAMENSDYAGLDDLLLCDEIFDSSALFTDSQLDSINDLTHYENKMTGNYNVSSETSTAVLDKLELDTPPDYDLSNLTFGSQDDSILGLIGGL*