AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002332

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002332 MtrunA17_Chr1g0173421 97.902 286 6 0 1 286 1 286 0.0 584
MsaG002332 MtrunA17_Chr7g0257681 65.157 287 79 2 1 285 1 268 4.87e-129 367
MsaG002332 MtrunA17_Chr6g0451591 49.640 139 63 2 2 137 50 184 3.36e-38 134
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002332 AT2G41835.1 62.718 287 97 3 1 286 1 278 4.52e-128 365
MsaG002332 AT3G57480.2 53.310 287 96 2 1 287 1 249 1.42e-106 310
MsaG002332 AT3G57480.1 53.310 287 96 2 1 287 1 249 1.42e-106 310
MsaG002332 AT3G28210.2 41.622 185 78 4 2 183 5 162 2.46e-38 134
MsaG002332 AT3G28210.1 41.622 185 78 4 2 183 5 162 2.46e-38 134
MsaG002332 AT5G48205.1 40.260 154 33 4 1 151 1 98 2.90e-25 99.8

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCCTAGATCTGGAAATTC+TGG 0.237504 1:+38311130 None:intergenic
CTATTCATTAGATTCATAAA+AGG 0.242926 1:+38309599 None:intergenic
CAACCTCCTCTTCATCTAAA+TGG 0.298522 1:-38309541 MsaT002332.1:CDS
TGATTCTCCCATGTTATGTT+TGG 0.324605 1:+38309818 None:intergenic
GTAACTTTCTCATAATTTGA+TGG 0.361749 1:+38309776 None:intergenic
CGCTTCTAATATTCGAGCTT+CGG 0.377494 1:-38309498 MsaT002332.1:CDS
ATCTCTTTGCATCCAGCTGC+AGG 0.399699 1:+38309737 None:intergenic
GGTCCTGGACATTTGTGATC+AGG 0.415571 1:+38309644 None:intergenic
ATATGTCCACTTTGCGCTAA+AGG 0.436581 1:-38309866 MsaT002332.1:CDS
TTGGATCTTGCTCAGGAACT+AGG 0.441768 1:+38309837 None:intergenic
CACTTGCGATCGCTGCTACC+AGG 0.446006 1:-38311062 MsaT002332.1:intron
TATTCATTAGATTCATAAAA+GGG 0.454261 1:+38309600 None:intergenic
ATTCGAGCTTCGGCTGAGGC+TGG 0.454635 1:-38309488 MsaT002332.1:CDS
GTTATGTTTGGATCTTGCTC+AGG 0.458286 1:+38309830 None:intergenic
TAGACCATTGTTTGAAGCAT+AGG 0.461011 1:-38309673 MsaT002332.1:CDS
AGTAGTGATCGAGGAAAACT+TGG 0.461509 1:+38309358 None:intergenic
AGAGGAGGTTGAACTTGAGT+TGG 0.472577 1:+38309553 None:intergenic
ACTCCAGAATTTCCAGATCT+AGG 0.478228 1:-38311133 MsaT002332.1:CDS
TAACTTTCTCATAATTTGAT+GGG 0.483060 1:+38309777 None:intergenic
CATTGTTTGAAGCATAGGTT+TGG 0.498039 1:-38309668 MsaT002332.1:CDS
AAAACTTGGCACCGCATTGA+GGG 0.499599 1:+38309372 None:intergenic
TGTAGTCCATTTAGATGAAG+AGG 0.514775 1:+38309535 None:intergenic
GAAATCAACGAGCTTGCAAT+CGG 0.515709 1:+38311093 None:intergenic
AGGTGTATTGTTTGGAACAC+CGG 0.516965 1:-38309943 MsaT002332.1:CDS
CTCAAACACAATTAAATGCA+AGG 0.517875 1:-38309705 MsaT002332.1:CDS
CACAGATCCCGTGTCCCTTG+TGG 0.520415 1:-38309240 MsaT002332.1:CDS
GCGTGTCCTAAGTGTAGTAA+AGG 0.526636 1:-38309266 MsaT002332.1:CDS
CCCTCTCAACATGCTCCACA+AGG 0.529390 1:+38309225 None:intergenic
GTGAATCCTTTACTACACTT+AGG 0.538962 1:+38309260 None:intergenic
ACACTTAGGACACGCATCAA+TGG 0.539521 1:+38309274 None:intergenic
GGTCCTGATCACAAATGTCC+AGG 0.548572 1:-38309647 MsaT002332.1:CDS
GAAAACTTGGCACCGCATTG+AGG 0.550498 1:+38309371 None:intergenic
AGCAAGATCCAAACATAACA+TGG 0.557990 1:-38309826 MsaT002332.1:CDS
TAATATTCGAGCTTCGGCTG+AGG 0.559139 1:-38309492 MsaT002332.1:CDS
GTGGTGAAATTAACCAAGCA+TGG 0.560055 1:-38309451 MsaT002332.1:CDS
TGGTGAAATTAACCAAGCAT+GGG 0.560973 1:-38309450 MsaT002332.1:CDS
GGGAGAAAGAGCAACGGCAG+TGG 0.567326 1:-38309410 MsaT002332.1:CDS
CAAACCTATGCTTCAAACAA+TGG 0.573057 1:+38309669 None:intergenic
AACATGCTCCACAAGGGACA+CGG 0.573079 1:+38309232 None:intergenic
GAGCAACGGCAGTGGTCAAG+TGG 0.573351 1:-38309402 MsaT002332.1:CDS
TAGCAGCGATCGCAAGTGAA+AGG 0.598354 1:+38311067 None:intergenic
ACATGCTCCACAAGGGACAC+GGG 0.604172 1:+38309233 None:intergenic
TGGTAACATTCGCAACAGAT+CGG 0.605303 1:+38309294 None:intergenic
CGGACTCCTTTAGCGCAAAG+TGG 0.607339 1:+38309860 None:intergenic
ACCGATGTTTGATATAACTC+CGG 0.608595 1:+38309924 None:intergenic
ATAATTTGATGGGTCGCAGT+CGG 0.619214 1:+38309787 None:intergenic
AGTCCATTTAGATGAAGAGG+AGG 0.622955 1:+38309538 None:intergenic
TCTCTTTGCATCCAGCTGCA+GGG 0.624481 1:+38309738 None:intergenic
GAGCATGTTGAGAGGGAACA+TGG 0.625868 1:-38309218 MsaT002332.1:CDS
CCCTTGTGGAGCATGTTGAG+AGG 0.626858 1:-38309226 MsaT002332.1:CDS
ATCGATTAAAGTAGTGATCG+AGG 0.631399 1:+38309349 None:intergenic
CGAAGCTCGAATATTAGAAG+CGG 0.637300 1:+38309499 None:intergenic
CCTTGTGGAGCATGTTGAGA+GGG 0.637426 1:-38309225 MsaT002332.1:CDS
GCAAGATCCAAACATAACAT+GGG 0.676319 1:-38309825 MsaT002332.1:CDS
TGGTGGCACTTCTAGAACGT+AGG 0.679977 1:-38309198 None:intergenic
GGTGAAATTAACCAAGCATG+GGG 0.687152 1:-38309449 MsaT002332.1:CDS
ACCGGAGTTATATCAAACAT+CGG 0.687208 1:-38309925 MsaT002332.1:CDS
CCTCTCAACATGCTCCACAA+GGG 0.702395 1:+38309226 None:intergenic
AATGGTGGGAGAAAGAGCAA+CGG 0.715605 1:-38309416 MsaT002332.1:CDS
GATCTTGCTCAGGAACTAGG+CGG 0.720155 1:+38309840 None:intergenic
GCTGGAATGTCAAAGTTGAG+TGG 0.723894 1:-38309470 MsaT002332.1:CDS
GTGAAATTAACCAAGCATGG+GGG 0.745364 1:-38309448 MsaT002332.1:CDS
GTGGAGCAATGCCCTCAATG+CGG 0.747142 1:-38309383 MsaT002332.1:CDS
CATGTTGAGAGGGAACATGG+TGG 0.749762 1:-38309215 MsaT002332.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 38309199 38311161 38309199 ID=MsaG002332
Chr1 mRNA 38309199 38311161 38309199 ID=MsaT002332.1;Parent=MsaG002332
Chr1 exon 38309199 38309963 38309199 ID=MsaT002332.1.exon2;Parent=MsaT002332.1
Chr1 CDS 38309199 38309963 38309199 ID=cds.MsaT002332.1;Parent=MsaT002332.1
Chr1 exon 38311063 38311161 38311063 ID=MsaT002332.1.exon1;Parent=MsaT002332.1
Chr1 CDS 38311063 38311161 38311063 ID=cds.MsaT002332.1;Parent=MsaT002332.1
Gene Sequence

>MsaT002332.1

ATGGGGACTCCAGAATTTCCAGATCTAGGAAAACACTGCTCTGACTCCGATTGCAAGCTCGTTGATTTCTTGCCTTTCACTTGCGATCGCTGCTACCAGGTGTATTGTTTGGAACACCGGAGTTATATCAAACATCGGTGTACAAAAGCTGACAAGCAAGATGTCACTGTAGTAATATGTCCACTTTGCGCTAAAGGAGTCCGCCTAGTTCCTGAGCAAGATCCAAACATAACATGGGAGAATCATGTTAACACCGACTGCGACCCATCAAATTATGAGAAAGTTACAAAGAAGAAAAAGTGCCCTGCAGCTGGATGCAAAGAGATCTTAGTATTCTCAAACACAATTAAATGCAAGGATTGCACAATAGACCATTGTTTGAAGCATAGGTTTGGTCCTGATCACAAATGTCCAGGACCTAAAAAAGTGGAAACAAATTTCCCTTTTATGAATCTAATGAATAGGAGTAGAAAAAAGGAGTCTAAAACCAACTCAAGTTCAACCTCCTCTTCATCTAAATGGACTACAAGCTTTCTTAATGCCGCTTCTAATATTCGAGCTTCGGCTGAGGCTGGAATGTCAAAGTTGAGTGGTGAAATTAACCAAGCATGGGGGACATCAAGCAATGGTGGGAGAAAGAGCAACGGCAGTGGTCAAGTGGAGCAATGCCCTCAATGCGGTGCCAAGTTTTCCTCGATCACTACTTTAATCGATCATGTGCAAAAAGTTCATGAAAGAAGTGGCAGCCGATCTGTTGCGAATGTTACCATTGATGCGTGTCCTAAGTGTAGTAAAGGATTCACAGATCCCGTGTCCCTTGTGGAGCATGTTGAGAGGGAACATGGTGGCACTTCTAGAACGTAG
Protein sequence

>MsaT002332.1

MGTPEFPDLGKHCSDSDCKLVDFLPFTCDRCYQVYCLEHRSYIKHRCTKADKQDVTVVICPLCAKGVRLVPEQDPNITWENHVNTDCDPSNYEKVTKKKKCPAAGCKEILVFSNTIKCKDCTIDHCLKHRFGPDHKCPGPKKVETNFPFMNLMNRSRKKESKTNSSSTSSSSKWTTSFLNAASNIRASAEAGMSKLSGEINQAWGTSSNGGRKSNGSGQVEQCPQCGAKFSSITTLIDHVQKVHERSGSRSVANVTIDACPKCSKGFTDPVSLVEHVEREHGGTSRT*