AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010868


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010868 MtrunA17_Chr2g0329921 94.464 289 15 1 86 373 15 303 0.0 521
MsaG010868 MtrunA17_Chr2g0329921 73.214 56 13 1 1 54 1 56 6.44e-20 89.0
MsaG010868 MtrunA17_Chr8g0342871 44.746 295 133 7 85 372 14 285 3.07e-68 216
MsaG010868 MtrunA17_Chr8g0342871 56.923 65 26 1 1 63 1 65 5.82e-16 77.4
MsaG010868 MtrunA17_Chr4g0054131 35.533 197 108 5 90 280 19 202 7.53e-25 103
MsaG010868 MtrunA17_Chr4g0054131 64.706 51 18 0 4 54 6 56 3.50e-15 75.5
MsaG010868 MtrunA17_Chr5g0401061 37.824 193 94 7 90 280 19 187 2.28e-24 101
MsaG010868 MtrunA17_Chr5g0401061 64.706 51 18 0 4 54 6 56 5.81e-15 74.7
MsaG010868 MtrunA17_Chr2g0293381 34.225 187 105 4 90 276 19 187 7.93e-22 94.4
MsaG010868 MtrunA17_Chr2g0293381 65.385 52 18 0 4 55 6 57 6.64e-16 77.4
MsaG010868 MtrunA17_Chr8g0384671 33.684 190 100 6 90 276 19 185 1.12e-21 94.0
MsaG010868 MtrunA17_Chr8g0384671 51.316 76 37 0 4 79 6 81 9.25e-17 80.1
MsaG010868 MtrunA17_Chr8g0383821 64.815 54 19 0 4 57 6 59 1.07e-17 79.0
MsaG010868 MtrunA17_Chr8g0383821 65.000 40 14 0 90 129 19 58 9.40e-12 62.0
MsaG010868 MtrunA17_Chr1g0166681 69.231 52 16 0 4 55 6 57 6.62e-17 78.6
MsaG010868 MtrunA17_Chr1g0166681 67.500 40 13 0 90 129 19 58 1.95e-12 65.9
MsaG010868 MtrunA17_Chr7g0260771 42.254 71 38 2 207 276 60 128 7.04e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010868 AT1G72740.2 41.837 294 132 9 86 370 15 278 1.95e-57 189
MsaG010868 AT1G72740.2 63.158 57 19 1 1 55 1 57 1.28e-16 79.7
MsaG010868 AT1G72740.1 40.268 298 137 9 86 370 15 284 5.78e-55 182
MsaG010868 AT1G72740.1 63.158 57 19 1 1 55 1 57 1.27e-16 79.7
MsaG010868 AT1G17520.4 39.249 293 150 5 86 370 15 287 1.64e-44 155
MsaG010868 AT1G17520.4 61.111 72 19 2 1 63 1 72 1.05e-18 85.9
MsaG010868 AT1G17520.3 38.333 300 144 9 86 370 15 288 9.17e-43 150
MsaG010868 AT1G17520.3 61.111 72 19 2 1 63 1 72 1.01e-18 85.9
MsaG010868 AT1G17520.1 38.796 299 149 6 86 370 15 293 9.46e-43 151
MsaG010868 AT1G17520.1 61.111 72 19 2 1 63 1 72 1.00e-18 85.9
MsaG010868 AT1G17520.2 38.667 300 149 7 86 370 15 294 5.98e-41 146
MsaG010868 AT1G17520.2 61.111 72 19 2 1 63 1 72 1.01e-18 85.9
MsaG010868 AT1G54260.1 34.694 196 85 5 211 370 6 194 1.91e-22 94.4
MsaG010868 AT1G49950.3 34.555 191 103 4 90 280 19 187 1.17e-21 94.4
MsaG010868 AT1G49950.3 63.462 52 19 0 4 55 6 57 1.15e-14 74.3
MsaG010868 AT1G49950.1 34.555 191 103 4 90 280 19 187 1.17e-21 94.4
MsaG010868 AT1G49950.1 63.462 52 19 0 4 55 6 57 1.15e-14 74.3
MsaG010868 AT1G49950.2 34.555 191 103 4 90 280 19 187 1.17e-21 94.4
MsaG010868 AT1G49950.2 63.462 52 19 0 4 55 6 57 1.15e-14 74.3
MsaG010868 AT3G49850.1 29.947 187 111 4 90 276 19 185 8.70e-16 77.4
MsaG010868 AT3G49850.1 62.745 51 19 0 5 55 7 57 2.79e-13 70.1
MsaG010868 AT3G49850.2 29.947 187 111 4 90 276 19 185 8.70e-16 77.4
MsaG010868 AT3G49850.2 62.745 51 19 0 5 55 7 57 2.79e-13 70.1
MsaG010868 AT5G67580.2 63.462 52 19 0 4 55 6 57 6.34e-14 72.0
MsaG010868 AT5G67580.1 63.462 52 19 0 4 55 6 57 6.34e-14 72.0
MsaG010868 AT1G54240.1 31.638 177 95 8 213 370 57 226 1.84e-11 63.9

Find 82 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTGGCAGGTCCATTTCTTT+TGG 0.234603 2:-78688199 None:intergenic
TGATTGTTTACCAGGATAAA+TGG 0.237698 2:+78682744 MsaT010868.1:intron
ACAGAAAGATATTCAAAGTT+TGG 0.268113 2:+78688337 MsaT010868.1:CDS
AGTTTCGGAAGCTTCCTTTA+TGG 0.269510 2:-78688251 None:intergenic
ATGGCGGAATTTAACTTCTA+AGG 0.281096 2:+78682763 MsaT010868.1:CDS
AGAAATATGGTGCTGGAAAA+TGG 0.290469 2:+78683827 MsaT010868.1:CDS
CAGAAAGATATTCAAAGTTT+GGG 0.300205 2:+78688338 MsaT010868.1:CDS
ACGAACCTTGAGATCAATAT+TGG 0.326871 2:-78683899 None:intergenic
ACAGAAGAAGCGTTAGAAAA+AGG 0.338386 2:+78682523 MsaT010868.1:CDS
TGCTGCTGCTGCTGTTGCTC+CGG 0.341435 2:+78684249 MsaT010868.1:CDS
CATCAAGGTGTTCAGAAATA+TGG 0.349929 2:+78683814 MsaT010868.1:intron
TGCATATGATGATGCCATAA+AGG 0.370905 2:+78688237 MsaT010868.1:CDS
ACAAAATGGTTACAAGATAA+AGG 0.372290 2:+78688129 MsaT010868.1:CDS
TCCTTATCATGCTGCTTCTT+CGG 0.379902 2:+78682799 MsaT010868.1:CDS
CATCACCTGCAGGTACAAAA+TGG 0.394363 2:+78688115 MsaT010868.1:intron
ACTCCCAAGGGTAAACCATC+TGG 0.398706 2:+78684145 MsaT010868.1:CDS
AAGTCTGCAGGCTAGAGTTT+CGG 0.422011 2:-78688266 None:intergenic
AGAAATACGGCGTCGGAAAG+TGG 0.422049 2:+78682551 MsaT010868.1:CDS
ACCACCTACACCAAAAGAAA+TGG 0.427940 2:+78688189 MsaT010868.1:CDS
GCAGAAGCAGCAGGAGTACC+AGG 0.430652 2:-78684214 None:intergenic
TGAAGCTCTATCAACAATCA+AGG 0.441177 2:+78685852 MsaT010868.1:CDS
GGTACTCCTGCTGCTTCTGC+TGG 0.444786 2:+78684217 MsaT010868.1:CDS
GCGAGTATTTGACCGAGCTC+AGG 0.447776 2:-78682592 None:intergenic
AGCATTTAAGTCAGAACCAT+TGG 0.454179 2:-78685878 None:intergenic
GACCCAGATGGTTTACCCTT+GGG 0.462495 2:-78684148 None:intergenic
CCTTCTCCGTCTCCTGCTCC+TGG 0.470392 2:+78684196 MsaT010868.1:CDS
AGACCCAGATGGTTTACCCT+TGG 0.488584 2:-78684149 None:intergenic
GGAGTAGCATTGCTTGGAGC+AGG 0.489776 2:-78684175 None:intergenic
GGAGTACCAGCAGAAGCAGC+AGG 0.492329 2:-78684223 None:intergenic
TTCTGAGAAGGCTGGCTAGT+AGG 0.497538 2:-78684316 None:intergenic
CTCAAGCTCAGACTCCGATT+CGG 0.498629 2:+78684290 MsaT010868.1:CDS
AATTATTAGATGACCCTGGC+AGG 0.501469 2:-78688213 None:intergenic
ACCGAAGAAGCAGCATGATA+AGG 0.505859 2:-78682800 None:intergenic
ATTATACTGAGGGTAAATCT+TGG 0.508478 2:-78684353 None:intergenic
GCAGCAGGAGTACCAGGAGC+AGG 0.512995 2:-78684208 None:intergenic
TGCTATTATTAGCTTCATTG+AGG 0.513608 2:+78685897 MsaT010868.1:CDS
GCATTTAAGTCAGAACCATT+GGG 0.513681 2:-78685877 None:intergenic
CTAGCCAATGCTACTCTACA+AGG 0.513732 2:+78682860 MsaT010868.1:CDS
CTCCGCGTCAGCAAGTCTGC+AGG 0.514816 2:-78688278 None:intergenic
CACTAGGTGCAAAGTTAAGA+AGG 0.516076 2:+78686917 MsaT010868.1:CDS
CCGTTCCAATATTGATCTCA+AGG 0.518952 2:+78683894 MsaT010868.1:CDS
GGAGAAGGAGTAGCATTGCT+TGG 0.518958 2:-78684181 None:intergenic
GGTGTAGCAGCAACATTGAC+CGG 0.528722 2:-78684268 None:intergenic
CTCCCAAGGGTAAACCATCT+GGG 0.529021 2:+78684146 MsaT010868.1:CDS
CCAAAAGAAATGGACCTGCC+AGG 0.529549 2:+78688199 MsaT010868.1:CDS
AACAACCTTGAGATCAGTGT+TGG 0.530301 2:-78682623 None:intergenic
CAAAATTTCAGAAGGACACT+AGG 0.531519 2:+78686901 MsaT010868.1:CDS
GAAATACGGCGTCGGAAAGT+GGG 0.534166 2:+78682552 MsaT010868.1:CDS
TTTGGCTACTGCAGCAGTCA+GGG 0.538485 2:+78688312 MsaT010868.1:CDS
CAGTCAAGGGAAACTTGAAA+AGG 0.538946 2:+78686945 MsaT010868.1:CDS
AACACCTTGTAGAGTAGCAT+TGG 0.543073 2:-78682864 None:intergenic
CTCAAAGTCAAAATTTCAGA+AGG 0.543098 2:+78686893 MsaT010868.1:CDS
AAGATAAAGGACACCTCAGT+GGG 0.554986 2:+78688142 MsaT010868.1:CDS
GGAGTACCAGGAGCAGGAGA+CGG 0.555301 2:-78684202 None:intergenic
AAGAGATGGGAAATCAAAAG+TGG 0.558180 2:+78682491 None:intergenic
TTAAGAAGGCTTGTCAGTCA+AGG 0.558246 2:+78686931 MsaT010868.1:CDS
GGTGTTCAGAAATATGGTGC+TGG 0.564792 2:+78683820 MsaT010868.1:intron
CCAGGAGCAGGAGACGGAGA+AGG 0.566651 2:-78684196 None:intergenic
TAAGAAGGCTTGTCAGTCAA+GGG 0.572247 2:+78686932 MsaT010868.1:CDS
TGTCATCATTCTGAGAAGGC+TGG 0.574703 2:-78684324 None:intergenic
CGAATCGGAGTCTGAGCTTG+AGG 0.575521 2:-78684289 None:intergenic
CGAGTATTTGACCGAGCTCA+GGG 0.577095 2:-78682591 None:intergenic
TCGTTCCAACACTGATCTCA+AGG 0.583235 2:+78682618 MsaT010868.1:CDS
CAAAAGAAATGGACCTGCCA+GGG 0.589349 2:+78688200 MsaT010868.1:CDS
GCATTGGCTAGAGCTAGAGC+AGG 0.593031 2:-78682848 None:intergenic
TCAAAACCCTAAAACTCCCA+AGG 0.596857 2:+78684132 MsaT010868.1:CDS
TCTGTGATGGCAGGTATGCT+CGG 0.596964 2:+78688496 MsaT010868.1:intron
TGGCTAGTAGGAGTCCGAAT+CGG 0.600441 2:-78684304 None:intergenic
AAGATATTCAAAGTTTGGGG+AGG 0.610909 2:+78688342 MsaT010868.1:CDS
GCATTGTCATCATTCTGAGA+AGG 0.619580 2:-78684328 None:intergenic
AGCCTGCAGACTTGCTGACG+CGG 0.625031 2:+78688276 MsaT010868.1:CDS
AGAAAGATATTCAAAGTTTG+GGG 0.625477 2:+78688339 MsaT010868.1:CDS
GCAAAATTATTAGATGACCC+TGG 0.640236 2:-78688217 None:intergenic
CCTTGAGATCAATATTGGAA+CGG 0.643002 2:-78683894 None:intergenic
CAAAACCCTAAAACTCCCAA+GGG 0.647393 2:+78684133 MsaT010868.1:CDS
TCAACAATCAAGGATCCCAA+TGG 0.653809 2:+78685862 MsaT010868.1:CDS
GGTGTCAAGAAATACGGCGT+CGG 0.659365 2:+78682544 MsaT010868.1:CDS
TTGTTTACCAGGATAAATGG+CGG 0.659616 2:+78682747 MsaT010868.1:intron
GGAGCAGGAGAAGACCCAGA+TGG 0.666811 2:-78684160 None:intergenic
GATAAAGGACACCTCAGTGG+GGG 0.678712 2:+78688144 MsaT010868.1:CDS
CAAGATAAAGGACACCTCAG+TGG 0.681785 2:+78688141 MsaT010868.1:CDS
AGATAAAGGACACCTCAGTG+GGG 0.739882 2:+78688143 MsaT010868.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 78682496 78688540 78682496 ID=MsaG010868
Chr2 mRNA 78682496 78688540 78682496 ID=MsaT010868.1;Parent=MsaG010868
Chr2 exon 78682496 78682639 78682496 ID=MsaT010868.1.exon1;Parent=MsaT010868.1
Chr2 CDS 78682496 78682639 78682496 ID=cds.MsaT010868.1;Parent=MsaT010868.1
Chr2 exon 78682758 78682881 78682758 ID=MsaT010868.1.exon2;Parent=MsaT010868.1
Chr2 CDS 78682758 78682881 78682758 ID=cds.MsaT010868.1;Parent=MsaT010868.1
Chr2 exon 78683821 78683915 78683821 ID=MsaT010868.1.exon3;Parent=MsaT010868.1
Chr2 CDS 78683821 78683915 78683821 ID=cds.MsaT010868.1;Parent=MsaT010868.1
Chr2 exon 78684100 78684368 78684100 ID=MsaT010868.1.exon4;Parent=MsaT010868.1
Chr2 CDS 78684100 78684368 78684100 ID=cds.MsaT010868.1;Parent=MsaT010868.1
Chr2 exon 78685834 78685918 78685834 ID=MsaT010868.1.exon5;Parent=MsaT010868.1
Chr2 CDS 78685834 78685918 78685834 ID=cds.MsaT010868.1;Parent=MsaT010868.1
Chr2 exon 78686877 78686966 78686877 ID=MsaT010868.1.exon6;Parent=MsaT010868.1
Chr2 CDS 78686877 78686966 78686877 ID=cds.MsaT010868.1;Parent=MsaT010868.1
Chr2 exon 78688127 78688409 78688127 ID=MsaT010868.1.exon7;Parent=MsaT010868.1
Chr2 CDS 78688127 78688409 78688127 ID=cds.MsaT010868.1;Parent=MsaT010868.1
Chr2 exon 78688509 78688540 78688509 ID=MsaT010868.1.exon8;Parent=MsaT010868.1
Chr2 CDS 78688509 78688540 78688509 ID=cds.MsaT010868.1;Parent=MsaT010868.1
Gene Sequence

>MsaT010868.1

ATGGGAAATCAAAAGTGGACATCTGAAACAGAAGAAGCGTTAGAAAAAGGTGTCAAGAAATACGGCGTCGGAAAGTGGGCAGATATTTTGAAAGACCCTGAGCTCGGTCAAATACTCGCTAGTCGTTCCAACACTGATCTCAAGGATAAATGGCGGAATTTAACTTCTAAGGACAAATCATTTGTTCCTTATCATGCTGCTTCTTCGGTCAATGTTGCTTTGTCTCATGTTGTTCCTGCTCTAGCTCTAGCCAATGCTACTCTACAAGGTGTTCAGAAATATGGTGCTGGAAAATGGAAGCACATTCTCAAAGACCCTCAATTCAGTCAAAAACTCGCTAGCCGTTCCAATATTGATCTCAAGGATAAATGGCGGAATTTGAATGTTTTTCCTGGTCAAAACCCTAAAACTCCCAAGGGTAAACCATCTGGGTCTTCTCCTGCTCCAAGCAATGCTACTCCTTCTCCGTCTCCTGCTCCTGGTACTCCTGCTGCTTCTGCTGGTACTCCTGCTGCTGCTGCTGCTGTTGCTCCGGTCAATGTTGCTGCTACACCTCAAGCTCAGACTCCGATTCGGACTCCTACTAGCCAGCCTTCTCAGAATGATGACAATGCTGCCAAGATTTACCCTCAGTACAATTCATTGGTTTTTGAAGCTCTATCAACAATCAAGGATCCCAATGGTTCTGACTTAAATGCTATTATTAGCTTCATTGAGCAAAAGCACAACTTGCCTCAAAGTCAAAATTTCAGAAGGACACTAGGTGCAAAGTTAAGAAGGCTTGTCAGTCAAGGGAAACTTGAAAAGGTACAAAATGGTTACAAGATAAAGGACACCTCAGTGGGGGTGAAGTTAGCTGATGACTCAAAACCACCTACACCAAAAGAAATGGACCTGCCAGGGTCATCTAATAATTTTGCATATGATGATGCCATAAAGGAAGCTTCCGAAACTCTAGCCTGCAGACTTGCTGACGCGGAGAATAAGTCATTTTTGGCTACTGCAGCAGTCAGGGAGACAGAAAGATATTCAAAGTTTGGGGAGGAAAATGATGCAATGTTAAAGATTGCAGAAGAGATTTATGCAAAATGTATGCTCGGTGAAACTGTTCGCTTCACTTAA

Protein sequence

>MsaT010868.1

MGNQKWTSETEEALEKGVKKYGVGKWADILKDPELGQILASRSNTDLKDKWRNLTSKDKSFVPYHAASSVNVALSHVVPALALANATLQGVQKYGAGKWKHILKDPQFSQKLASRSNIDLKDKWRNLNVFPGQNPKTPKGKPSGSSPAPSNATPSPSPAPGTPAASAGTPAAAAAVAPVNVAATPQAQTPIRTPTSQPSQNDDNAAKIYPQYNSLVFEALSTIKDPNGSDLNAIISFIEQKHNLPQSQNFRRTLGAKLRRLVSQGKLEKVQNGYKIKDTSVGVKLADDSKPPTPKEMDLPGSSNNFAYDDAIKEASETLACRLADAENKSFLATAAVRETERYSKFGEENDAMLKIAEEIYAKCMLGETVRFT*