AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038122

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038122 MtrunA17_Chr7g0243151 92.869 589 38 2 1 589 1 585 0.0 1102
MsaG038122 MtrunA17_Chr3g0114841 24.938 405 249 15 218 587 115 499 3.84e-17 84.7
MsaG038122 MtrunA17_Chr7g0224271 25.229 436 239 20 202 588 276 673 2.85e-12 69.7
MsaG038122 MtrunA17_Chr4g0039661 22.992 361 239 13 244 588 218 555 1.01e-11 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 96 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTCATGAATATTACCAATT+TGG 0.125992 7:-71692670 None:intergenic
ACCAATTTGGGGACTCAAAA+TGG 0.187480 7:-71692657 None:intergenic
CACATAATTGATTATTGTTT+TGG 0.189427 7:+71693253 MsaT038122.1:CDS
TGAAATTGACATCAATTAAA+TGG 0.209268 7:+71693332 MsaT038122.1:CDS
TTTCTTCATCAATTGGAAAT+TGG 0.210829 7:-71692592 None:intergenic
TTCATGAATATTACCAATTT+GGG 0.226150 7:-71692669 None:intergenic
TACTTTGCCACAAGAAAATA+TGG 0.244532 7:+71692904 MsaT038122.1:CDS
ACCTTGATAAAATACCTTAA+AGG 0.261691 7:-71693149 None:intergenic
TCTATGTGCTCATAGATTAA+TGG 0.263439 7:-71692323 None:intergenic
AACTCCCTTCACTTTCTTCT+TGG 0.266056 7:-71692703 None:intergenic
CATTAGAGATGGAAGTTCTA+AGG 0.276688 7:-71692615 None:intergenic
AGCAAGGGAATTATTACTTT+TGG 0.295898 7:+71693631 MsaT038122.1:CDS
CTTGTATATCTTCTCTTGAT+TGG 0.318337 7:+71693815 MsaT038122.1:CDS
ACTTCCATCTCTAATGGAAT+TGG 0.322043 7:+71692622 MsaT038122.1:CDS
ATACTCATATAGTTCCCTTT+TGG 0.329361 7:-71693395 None:intergenic
GATATGATCATTGGTGAATA+TGG 0.332452 7:-71692570 None:intergenic
TCTAAGGTTTCTTCATCAAT+TGG 0.336948 7:-71692599 None:intergenic
CTTAGAACTTCCATCTCTAA+TGG 0.346666 7:+71692616 MsaT038122.1:CDS
ATGAAAATTCTGAACGTGTT+TGG 0.348685 7:+71693359 MsaT038122.1:CDS
AATGATAGGTCTTCCACATA+TGG 0.349065 7:+71693534 MsaT038122.1:CDS
TCTTGTATGCCTCGCCTTTG+AGG 0.374060 7:-71693114 None:intergenic
CCTCGGAGACAGTTGTAAAA+TGG 0.374805 7:+71692775 MsaT038122.1:CDS
CTATGTGCTCATAGATTAAT+GGG 0.375049 7:-71692322 None:intergenic
TTGGCTTTCAATTTAATGAT+AGG 0.377944 7:+71693520 MsaT038122.1:CDS
AGTGAGTCTTCCACACTTGA+TGG 0.390562 7:+71692940 MsaT038122.1:CDS
CTCTTGATTGGTTACAAACA+TGG 0.411194 7:+71693827 MsaT038122.1:CDS
AAAGGTGAGATTAGCTTAGA+AGG 0.414505 7:+71693880 MsaT038122.1:CDS
ACTCATGTGGTTTGAAATTG+AGG 0.416697 7:+71693422 MsaT038122.1:CDS
GAAATTGAGGGTAGAGGAAA+AGG 0.420118 7:+71693435 MsaT038122.1:CDS
TCTGATTTCATTGAAAGTGT+TGG 0.420317 7:-71692857 None:intergenic
TCATATCATGCTAGAATTGA+AGG 0.431395 7:+71693964 MsaT038122.1:CDS
TCAACCATGGTGAAGCTATA+CGG 0.433516 7:-71692389 None:intergenic
GGTGCATTACAAGGCTTTGT+TGG 0.436581 7:+71693720 MsaT038122.1:CDS
GAAACAGTCTCCAATAGAAA+AGG 0.449571 7:-71693292 None:intergenic
TGGAAATTGGATATGATCAT+TGG 0.449728 7:-71692579 None:intergenic
AGTGATGGCTATCATCATAA+AGG 0.457503 7:+71693862 MsaT038122.1:CDS
GAGGATTTGATCAAGAACTA+TGG 0.460555 7:+71693607 MsaT038122.1:CDS
GTCTCAAGAGAGTCACCAAT+TGG 0.467270 7:-71693046 None:intergenic
GAGGGTAGAGGAAAAGGAGT+TGG 0.469574 7:+71693441 MsaT038122.1:CDS
TCATCCATGATGAGACCATA+TGG 0.470839 7:-71692431 None:intergenic
CTATACCCTTCGAGGTTATG+TGG 0.478048 7:-71692743 None:intergenic
TGCATGTGAAATATTGTTTG+TGG 0.478742 7:+71693789 MsaT038122.1:CDS
ATGATAGGTCTTCCACATAT+GGG 0.481369 7:+71693535 MsaT038122.1:CDS
GTTGATAACTATGATCCATA+TGG 0.484071 7:+71692416 MsaT038122.1:CDS
AGGGAATTTGGTGCATTACA+AGG 0.487309 7:+71693711 MsaT038122.1:CDS
TGTTGGACTCCATGCATCAC+AGG 0.496115 7:-71692840 None:intergenic
GCTCAAGAAGTGACAAATCA+TGG 0.497130 7:+71693085 MsaT038122.1:CDS
CTTCTAACCATTCCCATATG+TGG 0.507260 7:-71693547 None:intergenic
TCATCCATGATGATGCCATA+TGG 0.508726 7:-71692476 None:intergenic
AAATGAGAATCAACTTGTGT+TGG 0.511243 7:+71693990 MsaT038122.1:CDS
CATGGTGAAGCCTTGGAGAA+AGG 0.516575 7:+71692968 MsaT038122.1:CDS
GAAATGATCGTAAGTGGCAC+TGG 0.516790 7:-71692801 None:intergenic
GATTTGAACTATACCCTTCG+AGG 0.518294 7:-71692751 None:intergenic
GGAAGCACATGGTGAAGCCT+TGG 0.523810 7:+71692961 MsaT038122.1:CDS
TGCTCATAGATTAATGGGCA+TGG 0.524572 7:-71692317 None:intergenic
TGGTTTGAAATTGAGGGTAG+AGG 0.527276 7:+71693429 MsaT038122.1:CDS
CTCATGTGGTTTGAAATTGA+GGG 0.529548 7:+71693423 MsaT038122.1:CDS
GGTGAGATTAGCTTAGAAGG+TGG 0.534203 7:+71693883 MsaT038122.1:CDS
TATTTCATCAATTCTTGAAG+CGG 0.538453 7:+71693204 MsaT038122.1:CDS
AGAATCAACTTGTGTTGGAA+TGG 0.540696 7:+71693995 MsaT038122.1:CDS
GGTGATGACTATGTTCCATA+TGG 0.543086 7:+71692461 MsaT038122.1:CDS
GAAGTCAGAGAAATGTTGAA+AGG 0.546931 7:+71693931 MsaT038122.1:CDS
TAAAGGGAAATGATCGTAAG+TGG 0.549388 7:-71692807 None:intergenic
ATCAAGAACTATGGTAGCAA+GGG 0.551686 7:+71693616 MsaT038122.1:CDS
AAAATTCTCCCTGTGATGCA+TGG 0.552151 7:+71692831 MsaT038122.1:CDS
GAATCCAATTCCATTAGAGA+TGG 0.557271 7:-71692626 None:intergenic
CAACTTGTGTTGGAATGGAA+AGG 0.560463 7:+71694000 MsaT038122.1:CDS
TGTTCCATATGGCATCATCA+TGG 0.566239 7:+71692472 MsaT038122.1:CDS
GATCAAGAACTATGGTAGCA+AGG 0.567301 7:+71693615 MsaT038122.1:CDS
TCTTGATTGGTTACAAACAT+GGG 0.569487 7:+71693828 MsaT038122.1:CDS
TGATGATGATCAAAGGTTGA+TGG 0.571392 7:-71692347 None:intergenic
ATAGTTCTTGATCAAATCCT+CGG 0.572634 7:-71693605 None:intergenic
TGATCCATATGGTCTCATCA+TGG 0.574218 7:+71692427 MsaT038122.1:CDS
GATGATGATCAAAGGTTGAT+GGG 0.579359 7:-71692346 None:intergenic
TCAAGTGTGGAAGACTCACT+TGG 0.579458 7:-71692937 None:intergenic
CAATCAAGAGAAGATATACA+AGG 0.583066 7:-71693814 None:intergenic
AGGTCTTCCACATATGGGAA+TGG 0.588806 7:+71693540 MsaT038122.1:CDS
TATTACCAAGAAGAAAGTGA+AGG 0.596617 7:+71692698 MsaT038122.1:CDS
TGGGAAGAGATGAAAAGTGA+TGG 0.608114 7:+71693847 MsaT038122.1:CDS
CCATGTGCTTCCATCAAGTG+TGG 0.618160 7:-71692950 None:intergenic
ATTACCAAGAAGAAAGTGAA+GGG 0.618537 7:+71692699 MsaT038122.1:CDS
TCATGAATATTACCAATTTG+GGG 0.620776 7:-71692668 None:intergenic
ATGTTGATGATGATGATCAA+AGG 0.629471 7:-71692354 None:intergenic
TATGAGTATGCTAACTCATG+TGG 0.632716 7:+71693409 MsaT038122.1:CDS
GTTGGACTCCATGCATCACA+GGG 0.638138 7:-71692839 None:intergenic
AAAATAATGAACGAAACCTG+TGG 0.638753 7:+71693484 MsaT038122.1:CDS
GGGTATAGTTCAAATCCCCT+CGG 0.648026 7:+71692758 MsaT038122.1:CDS
GTTATCAACATGGTCAACCA+TGG 0.651417 7:-71692402 None:intergenic
CTCATCATGGATGATCATGT+TGG 0.654247 7:+71692440 MsaT038122.1:CDS
CCACACTTGATGGAAGCACA+TGG 0.654957 7:+71692950 MsaT038122.1:CDS
ATTCATAATCATATTCAACA+TGG 0.661377 7:-71692499 None:intergenic
AATCATGGAGAATACCTCAA+AGG 0.661739 7:+71693100 MsaT038122.1:CDS
AAGAGAGTCACCAATTGGAG+TGG 0.663623 7:-71693041 None:intergenic
TGGAGAATACCTCAAAGGCG+AGG 0.686092 7:+71693105 MsaT038122.1:CDS
ATGGATCATAGTTATCAACA+TGG 0.707690 7:-71692412 None:intergenic
TGAGCCGTATAGCTTCACCA+TGG 0.723365 7:+71692385 MsaT038122.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 71692290 71694059 71692290 ID=MsaG038122
Chr7 mRNA 71692290 71694059 71692290 ID=MsaT038122.1;Parent=MsaG038122
Chr7 exon 71692290 71694059 71692290 ID=MsaT038122.1.exon1;Parent=MsaT038122.1
Chr7 CDS 71692290 71694059 71692290 ID=cds.MsaT038122.1;Parent=MsaT038122.1
Gene Sequence

>MsaT038122.1

ATGAGTCAGCAAGAGATTCTTCACTCTCCATGCCCATTAATCTATGAGCACATAGACCCATCAACCTTTGATCATCATCATCAACATCAAGTTATTGAGCCGTATAGCTTCACCATGGTTGACCATGTTGATAACTATGATCCATATGGTCTCATCATGGATGATCATGTTGGTGATGACTATGTTCCATATGGCATCATCATGGATGACCATGTTGAATATGATTATGAATTCAATACTCTATTAAGCACTTCAGAGAATAGTACTCTCTCTGAAATCTCCATATTCACCAATGATCATATCCAATTTCCAATTGATGAAGAAACCTTAGAACTTCCATCTCTAATGGAATTGGATTCTTTTGATTCCATTTTGAGTCCCCAAATTGGTAATATTCATGAACAAGAATATTACCAAGAAGAAAGTGAAGGGAGTTTCCCTTCACAAAATTTTCCACATAACCTCGAAGGGTATAGTTCAAATCCCCTCGGAGACAGTTGTAAAATGGCTGCCAGTGCCACTTACGATCATTTCCCTTTACAAAATTCTCCCTGTGATGCATGGAGTCCAACACTTTCAATGAAATCAGATTTTTCATCAATTCAACAATCACTTACTTTGCCACAAGAAAATATGGAAATTGAAAACCAAGTGAGTCTTCCACACTTGATGGAAGCACATGGTGAAGCCTTGGAGAAAGGACAAAAAGCACTAGCAGAAGTTAATTTGAAGTGTATAAGCCAAAAAGTTACCACTCCAATTGGTGACTCTCTTGAGACACTTGCATTTTATTTGGCTCAAGAAGTGACAAATCATGGAGAATACCTCAAAGGCGAGGCATACAAGAATTTTCAGGCTGCCTTTAAGGTATTTTATCAAGGTAATTTGGTTGGAAAAATTGCTCATTTTTCAGCTATTTCATCAATTCTTGAAGCGGCTATGCTAGAAGATTGTGATGAAATTCACATAATTGATTATTGTTTTGGAAATGGTGTTCAATGGCCTTTTCTATTGGAGACTGTTTCAAAAATGAACAAAAGATTGAAATTGACATCAATTAAATGGAGTGATGAAAATTCTGAACGTGTTTGGAATTTTGAGGATGCCAAAAGGGAACTATATGAGTATGCTAACTCATGTGGTTTGAAATTGAGGGTAGAGGAAAAGGAGTTGGAAGAATTGATTAGTGAGATCAAAATAATGAACGAAACCTGTGGAAAGAAAGAGTTTTTGGCTTTCAATTTAATGATAGGTCTTCCACATATGGGAATGGTTAGAAGTAGAAGAAAAAATGCTTATGAGTTTTTGAAGGTAGCCGAGGATTTGATCAAGAACTATGGTAGCAAGGGAATTATTACTTTTGGTGATGGTGATGCATTTGAGAAACTGAAAAACAGTTTGAATTTCATGTCATTTTTTGAAGGGAATTTGGTGCATTACAAGGCTTTGTTGGAATCAATTCAATCACAATTTTCAGAAAATTTCTCAGAAGCAAGAATTGCATGTGAAATATTGTTTGTGGCACCTTGTATATCTTCTCTTGATTGGTTACAAACATGGGAAGAGATGAAAAGTGATGGCTATCATCATAAAGGTGAGATTAGCTTAGAAGGTGGAAGATTGAGCAAAAATGTTTTGATGGAAGTCAGAGAAATGTTGAAAGGAAGTGATAGTTCATATCATGCTAGAATTGAAGGAGAAAATGAGAATCAACTTGTGTTGGAATGGAAAGGAAGTCAACTGTTGAGATTTTCTATTTGGAAAAATTGA
Protein sequence

>MsaT038122.1

MSQQEILHSPCPLIYEHIDPSTFDHHHQHQVIEPYSFTMVDHVDNYDPYGLIMDDHVGDDYVPYGIIMDDHVEYDYEFNTLLSTSENSTLSEISIFTNDHIQFPIDEETLELPSLMELDSFDSILSPQIGNIHEQEYYQEESEGSFPSQNFPHNLEGYSSNPLGDSCKMAASATYDHFPLQNSPCDAWSPTLSMKSDFSSIQQSLTLPQENMEIENQVSLPHLMEAHGEALEKGQKALAEVNLKCISQKVTTPIGDSLETLAFYLAQEVTNHGEYLKGEAYKNFQAAFKVFYQGNLVGKIAHFSAISSILEAAMLEDCDEIHIIDYCFGNGVQWPFLLETVSKMNKRLKLTSIKWSDENSERVWNFEDAKRELYEYANSCGLKLRVEEKELEELISEIKIMNETCGKKEFLAFNLMIGLPHMGMVRSRRKNAYEFLKVAEDLIKNYGSKGIITFGDGDAFEKLKNSLNFMSFFEGNLVHYKALLESIQSQFSENFSEARIACEILFVAPCISSLDWLQTWEEMKSDGYHHKGEISLEGGRLSKNVLMEVREMLKGSDSSYHARIEGENENQLVLEWKGSQLLRFSIWKN*