AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006201

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006201 MtrunA17_Chr2g0278581 98.246 342 6 0 1 342 1 342 0.0 695
MsaG006201 MtrunA17_Chr6g0463901 85.075 335 50 0 1 335 1 335 0.0 603
MsaG006201 MtrunA17_Chr7g0241071 50.585 342 151 2 11 335 71 411 1.53e-116 343
MsaG006201 MtrunA17_Chr4g0049821 41.935 310 157 6 32 331 87 383 2.51e-75 237
MsaG006201 MtrunA17_Chr3g0113101 31.429 280 171 8 67 341 116 379 4.45e-23 99.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006201 AT1G43670.1 80.826 339 65 0 1 339 1 339 0.0 584
MsaG006201 AT3G54050.2 50.588 340 152 3 11 335 79 417 5.09e-116 342
MsaG006201 AT3G54050.1 50.588 340 152 3 11 335 79 417 5.09e-116 342
MsaG006201 AT5G64380.1 40.566 318 169 8 32 339 89 396 3.51e-73 232
MsaG006201 AT3G55800.1 31.317 281 164 9 67 338 123 383 1.25e-23 100

Find 71 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCATCAATCACATTGTTCT+TGG 0.178736 2:-2794752 MsaT006201.1:CDS
AGAATAAATCTTTCCTTTCT+TGG 0.200861 2:+2792724 None:intergenic
CACTATTGCATATAGATCTT+TGG 0.249832 2:-2793224 MsaT006201.1:intron
ACTGACTTGCCACGCTGTGC+TGG 0.263816 2:+2793488 None:intergenic
CTTACCTTAGCTTTCCATTT+GGG 0.275310 2:+2792325 None:intergenic
CATAGTTGTGTTTGATCCTT+TGG 0.288689 2:-2793377 MsaT006201.1:CDS
CCAAAGTCTCTTAGGTATAT+TGG 0.298619 2:-2792508 MsaT006201.1:CDS
TATGCAGAATCCAAAGAAAA+TGG 0.326692 2:-2791538 MsaT006201.1:CDS
TGTGCGTCCGCTGCTGATTA+AGG 0.328499 2:+2793691 None:intergenic
GAATAAATCTTTCCTTTCTT+GGG 0.336724 2:+2792725 None:intergenic
ATTGATTGTGGAGTTTCAAT+AGG 0.341565 2:-2793340 MsaT006201.1:CDS
CACCATATAGCAATGTTCTA+TGG 0.354552 2:+2792379 None:intergenic
TCTTACCTTAGCTTTCCATT+TGG 0.373307 2:+2792324 None:intergenic
CTGACTTGCCACGCTGTGCT+GGG 0.376754 2:+2793489 None:intergenic
TCGTAGCTTCCAAGGAATAT+TGG 0.381749 2:+2791586 None:intergenic
AATGCATGTACCTTGATGTT+TGG 0.386422 2:+2792862 None:intergenic
GTTCACCACCAAAGTCTCTT+AGG 0.399293 2:-2792516 MsaT006201.1:CDS
TTTGTGCTTAGCACAGGAAA+TGG 0.404030 2:-2792937 MsaT006201.1:CDS
ATCACCAAGCAGATGCTAAC+AGG 0.413676 2:-2794853 MsaT006201.1:CDS
ATGCATGTACCTTGATGTTT+GGG 0.428381 2:+2792863 None:intergenic
TTTACACTTGATCCTTCCCT+TGG 0.433839 2:-2792904 MsaT006201.1:CDS
GTCCATAGAACATTGCTATA+TGG 0.440321 2:-2792381 MsaT006201.1:CDS
CCAATATACCTAAGAGACTT+TGG 0.448075 2:+2792508 None:intergenic
AAGATTTATTCTGTGAATGA+AGG 0.455966 2:-2792713 MsaT006201.1:CDS
GCAGCTGGTTACTGCATGTA+TGG 0.456073 2:-2793131 MsaT006201.1:CDS
CTGATTTGATGACAATAACT+AGG 0.457076 2:-2794829 MsaT006201.1:CDS
AGCACAGGAAATGGAGTGAA+TGG 0.467256 2:-2792928 MsaT006201.1:CDS
AACAAAACTCACTTGAACAT+TGG 0.470224 2:+2794548 None:intergenic
ATTGCAACCTGGGAGCAGTT+TGG 0.473530 2:-2793156 MsaT006201.1:CDS
AACTCCACAATCAATGTTTG+AGG 0.474075 2:+2793348 None:intergenic
TGACTTGCCACGCTGTGCTG+GGG 0.480596 2:+2793490 None:intergenic
GATCGATCGCCAATATTCCT+TGG 0.483711 2:-2791595 MsaT006201.1:CDS
GCTGATAAGAAAAGCCCAAA+TGG 0.486498 2:-2792339 MsaT006201.1:CDS
GGGAGCAGTTTGGTAGCAGC+TGG 0.487734 2:-2793146 MsaT006201.1:CDS
TGGTGTCTCCAGCAAGTCCT+AGG 0.492171 2:+2794568 None:intergenic
TTGCAGTTTGTGCTTAGCAC+AGG 0.508953 2:-2792943 MsaT006201.1:intron
GTTGAAGATGCATTGCAACC+TGG 0.510015 2:-2793167 MsaT006201.1:CDS
TCCGAAACTTACTTGGCGGT+TGG 0.511923 2:+2792668 None:intergenic
GTGCCTTCTTGTTTCAGAAG+AGG 0.512489 2:-2793534 MsaT006201.1:CDS
TTGAAGATGCATTGCAACCT+GGG 0.517948 2:-2793166 MsaT006201.1:CDS
TTCTAATGAAGTATTTGTGA+AGG 0.533564 2:-2793714 MsaT006201.1:CDS
CAGTCCTGTTAGCATCTGCT+TGG 0.542405 2:+2794849 None:intergenic
GTTGTGTTTGATCCTTTGGA+TGG 0.544716 2:-2793373 MsaT006201.1:CDS
CAATTTCATCGTAGCTTCCA+AGG 0.546062 2:+2791578 None:intergenic
GACTTGCCACGCTGTGCTGG+GGG 0.552070 2:+2793491 None:intergenic
TGCTCCATCAAATATGACAT+TGG 0.555129 2:+2791944 None:intergenic
ACTTCATAGACACCCAAGAA+AGG 0.558174 2:-2792737 MsaT006201.1:intron
GGTTCCTCAAACATTGATTG+TGG 0.568496 2:-2793352 MsaT006201.1:CDS
AACAATGTGATTGATGAGAA+TGG 0.568531 2:+2794757 None:intergenic
TCATATTTGATGGAGCAAGC+AGG 0.570588 2:-2791938 MsaT006201.1:CDS
GAGTCAATATGAACTCTCCA+AGG 0.570901 2:+2792887 None:intergenic
TGTTTGTTCTTCTGTTAACA+AGG 0.573073 2:-2794720 MsaT006201.1:intron
AGCTTTCACAGGAAAACAAA+GGG 0.576524 2:-2791909 MsaT006201.1:intron
GCAGGAGGTCAAGCTTTCAC+AGG 0.578987 2:-2791920 MsaT006201.1:CDS
AATTGCAAGTTTCCACAAGA+CGG 0.580510 2:-2792538 MsaT006201.1:CDS
AGTCTCTTAGGTATATTGGC+AGG 0.582669 2:-2792504 MsaT006201.1:intron
CAACCTCTTCTGAAACAAGA+AGG 0.591219 2:+2793531 None:intergenic
CATGTATGGAAGCTCTTGCA+CGG 0.591600 2:-2793117 MsaT006201.1:intron
AAAGCCCAAATGGAAAGCTA+AGG 0.593648 2:-2792329 MsaT006201.1:intron
GCTGCTACCAAACTGCTCCC+AGG 0.598305 2:+2793149 None:intergenic
ATTGACTCACCCAAACATCA+AGG 0.604776 2:-2792872 MsaT006201.1:intron
TTTGGTGGTGAACCGTCTTG+TGG 0.607678 2:+2792526 None:intergenic
CATAGAACATTGCTATATGG+TGG 0.610102 2:-2792378 MsaT006201.1:CDS
AATATGAACTCTCCAAGGGA+AGG 0.611205 2:+2792892 None:intergenic
AAGCTTTCACAGGAAAACAA+AGG 0.624169 2:-2791910 MsaT006201.1:CDS
GTGAAGGCCTTAATCAGCAG+CGG 0.626415 2:-2793698 MsaT006201.1:CDS
ATATACCTAAGAGACTTTGG+TGG 0.639800 2:+2792511 None:intergenic
AGTCAATATGAACTCTCCAA+GGG 0.668311 2:+2792888 None:intergenic
ATGTTTGAGGAACCATCCAA+AGG 0.670132 2:+2793361 None:intergenic
TCAAAGTATGCTGAATCACG+TGG 0.673339 2:-2794788 MsaT006201.1:CDS
TATTTGATGGAGCAAGCAGG+AGG 0.695622 2:-2791935 MsaT006201.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 2791531 2794879 2791531 ID=MsaG006201
Chr2 mRNA 2791531 2794879 2791531 ID=MsaT006201.1;Parent=MsaG006201
Chr2 exon 2791531 2791647 2791531 ID=MsaT006201.1.exon12;Parent=MsaT006201.1
Chr2 CDS 2791531 2791647 2791531 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2791910 2791985 2791910 ID=MsaT006201.1.exon11;Parent=MsaT006201.1
Chr2 CDS 2791910 2791985 2791910 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2792330 2792416 2792330 ID=MsaT006201.1.exon10;Parent=MsaT006201.1
Chr2 CDS 2792330 2792416 2792330 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2792505 2792570 2792505 ID=MsaT006201.1.exon9;Parent=MsaT006201.1
Chr2 CDS 2792505 2792570 2792505 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2792680 2792750 2792680 ID=MsaT006201.1.exon8;Parent=MsaT006201.1
Chr2 CDS 2792680 2792750 2792680 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2792873 2792959 2792873 ID=MsaT006201.1.exon7;Parent=MsaT006201.1
Chr2 CDS 2792873 2792959 2792873 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2793118 2793231 2793118 ID=MsaT006201.1.exon6;Parent=MsaT006201.1
Chr2 CDS 2793118 2793231 2793118 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2793336 2793402 2793336 ID=MsaT006201.1.exon5;Parent=MsaT006201.1
Chr2 CDS 2793336 2793402 2793336 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2793494 2793555 2793494 ID=MsaT006201.1.exon4;Parent=MsaT006201.1
Chr2 CDS 2793494 2793555 2793494 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2793691 2793765 2793691 ID=MsaT006201.1.exon3;Parent=MsaT006201.1
Chr2 CDS 2793691 2793765 2793691 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2794560 2794607 2794560 ID=MsaT006201.1.exon2;Parent=MsaT006201.1
Chr2 CDS 2794560 2794607 2794560 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Chr2 exon 2794721 2794879 2794721 ID=MsaT006201.1.exon1;Parent=MsaT006201.1
Chr2 CDS 2794721 2794879 2794721 ID=cds.MsaT006201.1;Parent=MsaT006201.1
Gene Sequence

>MsaT006201.1

ATGGATCACCAAGCAGATGCTAACAGGACTGATTTGATGACAATAACTAGGTTTGTTCTGAATGAGCAATCAAAGTATGCTGAATCACGTGGAGATTTCACCATTCTCATCAATCACATTGTTCTTGGCTGCAAATTTGTTTGTTCTTCTGTTAACAAGGCTGGATTGGCAAAAATCCTAGGACTTGCTGGAGACACCAATGTTCAAGGGGAGGAGCAAAAGAAATTGGATGTGATTTCTAATGAAGTATTTGTGAAGGCCTTAATCAGCAGCGGACGCACATGCCTTCTTGTTTCAGAAGAGGTTGACGATGCTATCATTGTGCCCCCAGCACAGCGTGGCAAATACATAGTTGTGTTTGATCCTTTGGATGGTTCCTCAAACATTGATTGTGGAGTTTCAATAGGAACTATCTTTGGTATTTACACAGTGAAAGATACAACTGAAGTTAGCGTTGAAGATGCATTGCAACCTGGGAGCAGTTTGGTAGCAGCTGGTTACTGCATGTATGGAAGCTCTTGCACGTTTGTGCTTAGCACAGGAAATGGAGTGAATGGTTTTACACTTGATCCTTCCCTTGGAGAGTTCATATTGACTCACCCAAACATCAAGACACCCAAGAAAGGAAAGATTTATTCTGTGAATGAAGGAAATGCCAAAAACTGGGATGAACCAACCGCCAAATACGTAGAAAATTGCAAGTTTCCACAAGACGGTTCACCACCAAAGTCTCTTAGGTATATTGGCAGTATGGTAGCTGATGTCCATAGAACATTGCTATATGGTGGTATATTCATGTACCCTGCTGATAAGAAAAGCCCAAATGGAAAGCTAAGGGTTCTGTATGAAGTTTTTCCAATGTCATATTTGATGGAGCAAGCAGGAGGTCAAGCTTTCACAGGAAAACAAAGGGCACTTGACTTGGTTCCTACGAAAATACATGATCGATCGCCAATATTCCTTGGAAGCTACGATGAAATTGAGCATATAAAAGAGCTTTATGCAGAATCCAAAGAAAATGGTGCATGA
Protein sequence

>MsaT006201.1

MDHQADANRTDLMTITRFVLNEQSKYAESRGDFTILINHIVLGCKFVCSSVNKAGLAKILGLAGDTNVQGEEQKKLDVISNEVFVKALISSGRTCLLVSEEVDDAIIVPPAQRGKYIVVFDPLDGSSNIDCGVSIGTIFGIYTVKDTTEVSVEDALQPGSSLVAAGYCMYGSSCTFVLSTGNGVNGFTLDPSLGEFILTHPNIKTPKKGKIYSVNEGNAKNWDEPTAKYVENCKFPQDGSPPKSLRYIGSMVADVHRTLLYGGIFMYPADKKSPNGKLRVLYEVFPMSYLMEQAGGQAFTGKQRALDLVPTKIHDRSPIFLGSYDEIEHIKELYAESKENGA*