AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027156

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027156 MtrunA17_Chr5g0418821 89.734 526 25 7 1 509 1 514 0.0 832
MsaG027156 MtrunA17_Chr4g0043071 42.342 555 217 20 1 509 1 498 7.02e-81 260
MsaG027156 MtrunA17_Chr4g0061301 33.210 542 260 24 6 509 13 490 5.19e-57 197
MsaG027156 MtrunA17_Chr3g0086331 34.234 222 104 6 5 213 39 231 1.24e-19 91.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027156 AT1G26610.1 42.481 532 193 22 5 509 10 455 3.27e-92 289
MsaG027156 AT1G26590.4 33.053 475 159 20 5 465 10 339 5.15e-36 137
MsaG027156 AT1G26590.3 33.053 475 159 20 5 465 10 339 5.15e-36 137
MsaG027156 AT1G26590.1 33.053 475 159 20 5 465 10 339 5.15e-36 137
MsaG027156 AT1G26590.2 32.983 476 160 20 5 466 28 358 1.09e-35 137
MsaG027156 AT3G60580.1 39.583 96 45 3 414 509 198 280 7.67e-11 63.5

Find 82 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAGAAAGAGATTGGATTT+AGG 0.149234 5:+36064487 MsaT027156.1:CDS
TTGAAAATCTTGTTACAAAT+TGG 0.152666 5:-36065645 None:intergenic
CATCATTTCCTCCAATAAAA+TGG 0.153454 5:-36065701 None:intergenic
AGAGAAAGAGATTGGATTTA+GGG 0.199212 5:+36064488 MsaT027156.1:CDS
GATGATGGTAACCTTATTTA+TGG 0.208436 5:+36064526 MsaT027156.1:CDS
GTTTCTGATAATTCTGATTC+TGG 0.223352 5:+36065159 MsaT027156.1:CDS
TTCCTATTGCTTTGTGCCTT+TGG 0.236872 5:-36065540 None:intergenic
GTCTAGAGATTCTACTTATA+AGG 0.238762 5:+36064945 MsaT027156.1:CDS
AAGATGAAATCGGTCGAAAT+TGG 0.290349 5:+36065132 MsaT027156.1:CDS
GCAGCAGCAGCAGGAGGTGC+AGG 0.291343 5:-36065771 None:intergenic
TTCAAGTCAGGACAAGCTTT+AGG 0.299867 5:+36065663 MsaT027156.1:CDS
AAATTGTTCTTCTTCGGTTT+CGG 0.316942 5:+36064876 MsaT027156.1:CDS
TGAATTCAAGAAAGTAGTTT+TGG 0.325143 5:+36065344 MsaT027156.1:CDS
TCAAGTCAGGACAAGCTTTA+GGG 0.329356 5:+36065664 MsaT027156.1:CDS
AGTCTTCGTCTTCGCTTCAT+TGG 0.341040 5:+36064851 MsaT027156.1:CDS
TCTCTCTAAGACCATAAATA+AGG 0.341554 5:-36064537 None:intergenic
GTCTTCGTCTTCGCTTCATT+GGG 0.345040 5:+36064852 MsaT027156.1:CDS
TTGGGGAAATTGTTCTTCTT+CGG 0.374225 5:+36064870 MsaT027156.1:CDS
AATCTCTTGGTGGTCACATT+AGG 0.382747 5:+36064365 MsaT027156.1:CDS
TGTCCGTGAAAAGCAGAAAT+TGG 0.395743 5:+36064732 MsaT027156.1:CDS
CCATCATTGAAAGCTCTTTG+TGG 0.396935 5:+36064649 MsaT027156.1:CDS
GATTCTGGATACTTCACATA+TGG 0.400793 5:+36065174 MsaT027156.1:CDS
TGAAAAGCAGAAATTGGTTA+TGG 0.401153 5:+36064738 MsaT027156.1:CDS
AAGTTTGCTGTTATGAATCA+TGG 0.406974 5:+36065045 MsaT027156.1:CDS
TTGCTTTGTGCCTTTGGAGC+AGG 0.407050 5:-36065534 None:intergenic
CCTTGTGGAAAATCTCTTGG+TGG 0.417387 5:+36064355 MsaT027156.1:CDS
GGGAAGAAAGAGAAAGAGAT+TGG 0.418968 5:+36064480 MsaT027156.1:CDS
TTCGGTTTCGGAGGTTGAGC+AGG 0.435311 5:+36064888 MsaT027156.1:CDS
TTCTGTAAAGAATGTGGAAA+AGG 0.436561 5:+36064622 MsaT027156.1:CDS
GATGCTAAGTCTTCAAAAGT+TGG 0.438840 5:+36065246 MsaT027156.1:CDS
CAAAACCTTCATTCATCATC+AGG 0.439438 5:-36065831 None:intergenic
ATCATTTCCTCCAATAAAAT+GGG 0.439536 5:-36065700 None:intergenic
GATTTAGGGTCTAGTGGTAA+TGG 0.442325 5:+36064502 MsaT027156.1:CDS
GCAGCATGAGCACCACCAGC+TGG 0.444894 5:-36065744 None:intergenic
TTTCCTTGTGGAAAATCTCT+TGG 0.449803 5:+36064352 MsaT027156.1:CDS
CTCCAAAGGCACAAAGCAAT+AGG 0.451795 5:+36065538 MsaT027156.1:CDS
TTCGGAGGTTGAGCAGGAGC+AGG 0.458621 5:+36064894 MsaT027156.1:CDS
TCTAGAGATTCTACTTATAA+GGG 0.461296 5:+36064946 MsaT027156.1:CDS
TCAGTCTGATACCGAGGCTT+CGG 0.472830 5:+36064765 MsaT027156.1:CDS
CCACAAAGAGCTTTCAATGA+TGG 0.474532 5:-36064649 None:intergenic
CTGAACAGTAGCAGCAGCAT+TGG 0.476419 5:-36064590 None:intergenic
AATAAGAAGTCAAGTACTAA+AGG 0.488173 5:+36065579 MsaT027156.1:CDS
CTTCGGTTCAGACTGATTCA+AGG 0.498154 5:+36064782 MsaT027156.1:CDS
GCTATGTTTAAGTTTGATGA+GGG 0.506285 5:+36064460 MsaT027156.1:CDS
GAGAAATTCTGTAAAGAATG+TGG 0.506498 5:+36064616 MsaT027156.1:CDS
TGTCACTCTGAGAAAGATAA+GGG 0.513515 5:+36064682 MsaT027156.1:CDS
TTGTCACTCTGAGAAAGATA+AGG 0.514322 5:+36064681 MsaT027156.1:CDS
GAAAGCTCTTTGTGGTCACA+TGG 0.514497 5:+36064657 MsaT027156.1:CDS
ATGATTCATAACAGCAAACT+TGG 0.515359 5:-36065043 None:intergenic
TGCTGCTGCTACTGTTCAGA+TGG 0.519726 5:+36064594 MsaT027156.1:CDS
CAAAGACGGGAAGATGAAAT+CGG 0.522844 5:+36065122 MsaT027156.1:CDS
CAAAGCAATAGGAACATGAA+TGG 0.522883 5:+36065549 MsaT027156.1:CDS
CTGAGAAGTTGAACAAAGAC+GGG 0.526537 5:+36065109 MsaT027156.1:CDS
AGATTAAGATCAAATAAAGA+TGG 0.528073 5:-36065801 None:intergenic
AGACTGATTCAAGGAGATCA+AGG 0.531367 5:+36064791 MsaT027156.1:CDS
TCTAGTGGTAATGGTGATGA+TGG 0.536602 5:+36064511 MsaT027156.1:CDS
AATCGGATTGAAAGTGTGTC+TGG 0.538516 5:+36064709 MsaT027156.1:CDS
GAATCAGATGATTCAAGTGA+TGG 0.538994 5:+36065210 MsaT027156.1:CDS
TGCTATGTTTAAGTTTGATG+AGG 0.542036 5:+36064459 MsaT027156.1:CDS
CTTCATTCATCATCAGGAGC+AGG 0.558382 5:-36065825 None:intergenic
TTGTTCTTCTTCGGTTTCGG+AGG 0.558551 5:+36064879 MsaT027156.1:CDS
ATCAGTCTGAACCGAAGCCT+CGG 0.559850 5:-36064776 None:intergenic
AGGAGCAGGAAGATGTTGCT+AGG 0.560537 5:+36064908 MsaT027156.1:CDS
GCTGAGAAGTTGAACAAAGA+CGG 0.563307 5:+36065108 MsaT027156.1:CDS
AGACACACTTTCAATCCGAT+TGG 0.563334 5:-36064707 None:intergenic
ACACTTGTGATTAGACCAGC+TGG 0.564954 5:+36065729 MsaT027156.1:CDS
CTGCTCCTGATGATGAATGA+AGG 0.579633 5:+36065826 MsaT027156.1:CDS
AGATTGGATTTAGGGTCTAG+TGG 0.582545 5:+36064496 MsaT027156.1:CDS
TGATTCTTATCCTGCTCCAA+AGG 0.589382 5:+36065524 MsaT027156.1:CDS
AGAAAGATAAGGGAGCCAAT+CGG 0.599365 5:+36064692 MsaT027156.1:CDS
CAAGTCAGGACAAGCTTTAG+GGG 0.607651 5:+36065665 MsaT027156.1:CDS
TCAGAAGACTCTGTCACCAA+AGG 0.619365 5:-36064976 None:intergenic
GCAAACTTGGTATCAACAGA+AGG 0.623895 5:-36065030 None:intergenic
GGATAGTCAGTCTGATACCG+AGG 0.628900 5:+36064759 MsaT027156.1:CDS
TCTTCGTCTTCGCTTCATTG+GGG 0.631575 5:+36064853 MsaT027156.1:CDS
AAGTCAGGACAAGCTTTAGG+GGG 0.631959 5:+36065666 MsaT027156.1:CDS
AGAATCCCAAGAAAACAACT+AGG 0.636642 5:+36064557 MsaT027156.1:CDS
TCAAGCAAGATAATAAGCAG+AGG 0.648910 5:+36065303 MsaT027156.1:CDS
TGTTTGAAAAGGTTTCCTTG+TGG 0.689303 5:+36064340 MsaT027156.1:CDS
AAGTTCAAGAATCTCAGCGG+CGG 0.692193 5:+36064820 MsaT027156.1:CDS
ATGAAGTTCAAGAATCTCAG+CGG 0.738528 5:+36064817 MsaT027156.1:CDS
CTTGTGATTAGACCAGCTGG+TGG 0.792005 5:+36065732 MsaT027156.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 36064316 36065845 36064316 ID=MsaG027156
Chr5 mRNA 36064316 36065845 36064316 ID=MsaT027156.1;Parent=MsaG027156
Chr5 exon 36064316 36065845 36064316 ID=MsaT027156.1.exon1;Parent=MsaT027156.1
Chr5 CDS 36064316 36065845 36064316 ID=cds.MsaT027156.1;Parent=MsaT027156.1
Gene Sequence

>MsaT027156.1

ATGGAGGAGAGAGTTTGTAAGTTTTGTTTGAAAAGGTTTCCTTGTGGAAAATCTCTTGGTGGTCACATTAGGACTCATAATATGAGTGAAAATTCACTTCAATCTAATGAAGAGAAAAGAATGAATGCTAATGCTAGTGTTAATGCTATGTTTAAGTTTGATGAGGGAAGAAAGAGAAAGAGATTGGATTTAGGGTCTAGTGGTAATGGTGATGATGGTAACCTTATTTATGGTCTTAGAGAGAATCCCAAGAAAACAACTAGGTTTGTGCACTCCAATGCTGCTGCTACTGTTCAGATGGAGAAATTCTGTAAAGAATGTGGAAAAGGTTTTCCATCATTGAAAGCTCTTTGTGGTCACATGGCTTGTCACTCTGAGAAAGATAAGGGAGCCAATCGGATTGAAAGTGTGTCTGGTGTCCGTGAAAAGCAGAAATTGGTTATGGATAGTCAGTCTGATACCGAGGCTTCGGTTCAGACTGATTCAAGGAGATCAAGGAGAATGAAGTTCAAGAATCTCAGCGGCGGTGATAATAAGTCTTCGTCTTCGCTTCATTGGGGAAATTGTTCTTCTTCGGTTTCGGAGGTTGAGCAGGAGCAGGAAGATGTTGCTAGGTGTTTGATGCTGCTGTCTAGAGATTCTACTTATAAGGGTCGTTTTCCTTTGGTGACAGAGTCTTCTGATAACAATTCAGTTGTTGTTGAAGAAAAATCGCCTTCTGTTGATACCAAGTTTGCTGTTATGAATCATGGTAAGAACATTGTTGCTGCTAAAAACAATGGTTTTGAGCTTGCTGAGAAGTTGAACAAAGACGGGAAGATGAAATCGGTCGAAATTGGTTATGTTTCTGATAATTCTGATTCTGGATACTTCACATATGGTCCTAAAAAAGTAGAATCAGATGATTCAAGTGATGGTTTTTTCAGGAATGATGCTAAGTCTTCAAAAGTTGGTTACTTTTCTACTTTTGAGAATCATGGTTTTGAATCAAGCAAGATAATAAGCAGAGGAAGAAACAGAAACAGTGCTGAATTCAAGAAAGTAGTTTTGGATGATTCAAGAAAGAGGCAAAACATAGTTGAAAATTCTATCAAGAAAACAAAAAATGGTTATAACAACAATGATGAAGTGTATGAGAGTTTGAATATAGATAGAGAGAGTTATTCTGAAGATTCAGCTTATGAGAGTGATGAAAACAGCTCAGAAAGTGATTCTTATCCTGCTCCAAAGGCACAAAGCAATAGGAACATGAATGGAAAGACAAATAAGAAGTCAAGTACTAAAGGAAAGAAGAAAATGAAGTCAAAGAAAAGCAAAGAACATGAGTGTCCAATTTGTAACAAGATTTTCAAGTCAGGACAAGCTTTAGGGGGTCACAAAAGGTCCCATTTTATTGGAGGAAATGATGACAACACACTTGTGATTAGACCAGCTGGTGGTGCTCATGCTGCTGCTCCTGCACCTCCTGCTGCTGCTGCTGCTAATCCATCTTTATTTGATCTTAATCTACCTGCTCCTGATGATGAATGA
Protein sequence

>MsaT027156.1

MEERVCKFCLKRFPCGKSLGGHIRTHNMSENSLQSNEEKRMNANASVNAMFKFDEGRKRKRLDLGSSGNGDDGNLIYGLRENPKKTTRFVHSNAAATVQMEKFCKECGKGFPSLKALCGHMACHSEKDKGANRIESVSGVREKQKLVMDSQSDTEASVQTDSRRSRRMKFKNLSGGDNKSSSSLHWGNCSSSVSEVEQEQEDVARCLMLLSRDSTYKGRFPLVTESSDNNSVVVEEKSPSVDTKFAVMNHGKNIVAAKNNGFELAEKLNKDGKMKSVEIGYVSDNSDSGYFTYGPKKVESDDSSDGFFRNDAKSSKVGYFSTFENHGFESSKIISRGRNRNSAEFKKVVLDDSRKRQNIVENSIKKTKNGYNNNDEVYESLNIDRESYSEDSAYESDENSSESDSYPAPKAQSNRNMNGKTNKKSSTKGKKKMKSKKSKEHECPICNKIFKSGQALGGHKRSHFIGGNDDNTLVIRPAGGAHAAAPAPPAAAAANPSLFDLNLPAPDDE*