AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015000

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015000 MtrunA17_Chr3g0113051 100.000 191 0 0 1 191 1 191 1.06e-141 392
MsaG015000 MtrunA17_Chr7g0247111 62.295 183 65 2 1 183 1 179 3.69e-85 250
MsaG015000 MtrunA17_Chr8g0349391 64.246 179 58 2 1 179 1 173 3.09e-83 245
MsaG015000 MtrunA17_Chr8g0386501 59.563 183 66 1 1 183 1 175 2.26e-75 225
MsaG015000 MtrunA17_Chr1g0152431 58.757 177 69 2 1 175 1 175 2.28e-70 212
MsaG015000 MtrunA17_Chr4g0059371 53.591 181 81 2 2 181 3 181 8.68e-67 202
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015000 AT3G55770.3 83.696 184 28 1 1 184 1 182 7.50e-113 320
MsaG015000 AT3G55770.5 83.696 184 28 1 1 184 1 182 7.50e-113 320
MsaG015000 AT3G55770.2 83.696 184 28 1 1 184 1 182 7.50e-113 320
MsaG015000 AT3G55770.1 83.696 184 28 1 1 184 1 182 7.50e-113 320
MsaG015000 AT2G39900.1 82.609 184 29 2 1 183 1 182 5.46e-110 313
MsaG015000 AT2G39900.1 45.455 88 48 0 103 190 3 90 5.89e-22 89.0
MsaG015000 AT3G55770.7 70.642 218 28 2 1 184 1 216 5.53e-105 301
MsaG015000 AT3G55770.7 50.000 88 43 1 103 190 3 89 6.92e-22 89.4
MsaG015000 AT2G45800.1 64.706 187 62 2 1 187 1 183 1.66e-85 251
MsaG015000 AT1G01780.1 61.290 186 66 3 1 186 1 180 6.31e-83 244
MsaG015000 AT1G01780.1 49.425 87 44 0 3 89 97 183 1.79e-23 92.8
MsaG015000 AT3G61230.1 59.890 182 69 2 2 183 3 180 3.72e-80 238
MsaG015000 AT1G10200.1 59.322 177 68 2 1 175 1 175 2.69e-72 217
MsaG015000 AT3G55770.4 74.074 135 32 2 1 135 1 132 4.78e-67 202
MsaG015000 AT3G55770.4 50.000 88 43 1 103 190 3 89 2.93e-23 90.5
MsaG015000 AT3G55770.6 72.388 134 35 1 1 134 1 132 1.06e-64 196
MsaG015000 AT3G55770.6 50.000 88 43 1 103 190 3 89 1.77e-23 90.9
MsaG015000 AT2G45800.2 61.688 154 54 3 34 187 4 152 1.00e-60 187
MsaG015000 AT2G45800.2 56.338 71 31 0 3 73 68 138 2.76e-22 89.7
MsaG015000 AT1G10200.2 54.135 133 57 2 45 175 3 133 9.65e-46 148
MsaG015000 AT1G10200.2 52.778 72 34 0 3 74 61 132 9.92e-21 84.3

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCACTGCAAAGGAACTTTAA+AGG 0.270879 3:-81415707 MsaT015000.1:intron
AGCATCTGAAACAAGCTTTA+TGG 0.273670 3:+81415731 None:intergenic
GCATAATTTGATGGAGTTAT+AGG 0.293254 3:+81412825 None:intergenic
GGCACCAACATTCAAGATTC+TGG 0.320266 3:+81412687 None:intergenic
CTTGAAACATGATTTGTGAT+AGG 0.385052 3:+81412866 None:intergenic
GTTGATCAGCTTTCTGCTGA+TGG 0.412406 3:-81415763 MsaT015000.1:CDS
TCAAATTATGCAGCCCTTGA+GGG 0.436930 3:-81412813 MsaT015000.1:CDS
TCAAGGGCTGCATAATTTGA+TGG 0.451254 3:+81412816 None:intergenic
TCAGCAGAAAGCTGATCAAC+GGG 0.473853 3:+81415766 None:intergenic
ATGCAAGGCTTGTGAGAAAA+CGG 0.479151 3:-81415794 MsaT015000.1:CDS
GCTTAGCAGCTATTCATCAA+TGG 0.481021 3:-81414506 MsaT015000.1:CDS
AACATGCCCGCAGCTTTGCT+AGG 0.502670 3:+81414161 None:intergenic
TCAAGCAAATTTACCAGCAC+AGG 0.506130 3:+81414277 None:intergenic
TGCAATACAAAATGCCCTCA+AGG 0.513427 3:+81412799 None:intergenic
ATCAAATTATGCAGCCCTTG+AGG 0.523435 3:-81412814 MsaT015000.1:CDS
TTAAATCTTACCTTCTCCAA+TGG 0.527191 3:+81414092 None:intergenic
TGGCAAAACTGCTTATCCAT+TGG 0.531481 3:-81414108 MsaT015000.1:CDS
GTAGGTAACAGTCGAAAGCC+AGG 0.532163 3:-81412889 MsaT015000.1:intron
ACATGCCCGCAGCTTTGCTA+GGG 0.534302 3:+81414162 None:intergenic
GAGCAGCTCTTCAAGGAGCA+TGG 0.538709 3:-81414454 MsaT015000.1:CDS
TTGAAGAGCTGCTCAAAATG+AGG 0.540372 3:+81414463 None:intergenic
AGGACCCCTAGCAAAGCTGC+GGG 0.566248 3:-81414167 MsaT015000.1:CDS
ATCAGCAGAAAGCTGATCAA+CGG 0.567765 3:+81415765 None:intergenic
TGACGGTACAACTCCTGTGC+TGG 0.573159 3:-81414290 MsaT015000.1:intron
TTCAGATGCTCTCACTGCAA+AGG 0.579144 3:-81415718 MsaT015000.1:CDS
AACTGCTTATCCATTGGAGA+AGG 0.581461 3:-81414102 MsaT015000.1:intron
CATTCAAGATTCTGGAACGG+AGG 0.593798 3:+81412695 None:intergenic
TCATGTTTCAAGTGTTCACA+TGG 0.595518 3:-81412855 MsaT015000.1:CDS
GCAATACAAAATGCCCTCAA+GGG 0.597362 3:+81412800 None:intergenic
AAGGACCCCTAGCAAAGCTG+CGG 0.600940 3:-81414168 MsaT015000.1:CDS
AGCAGCTATTCATCAATGGA+AGG 0.620240 3:-81414502 MsaT015000.1:CDS
CAAGAAAAGTGTGCTACATG+TGG 0.644472 3:-81414128 MsaT015000.1:CDS
AACATGATTTGTGATAGGCC+TGG 0.655676 3:+81412871 None:intergenic
CAACATTCAAGATTCTGGAA+CGG 0.669244 3:+81412692 None:intergenic
TGTTTCAAGTGTTCACATGG+TGG 0.677869 3:-81412852 MsaT015000.1:CDS
CATGCCCGCAGCTTTGCTAG+GGG 0.687636 3:+81414163 None:intergenic
ACAGCTGCAAAGGTAGCTGA+CGG 0.690921 3:-81414307 MsaT015000.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 81412698 81415842 81412698 ID=MsaG015000
Chr3 mRNA 81412698 81415842 81412698 ID=MsaT015000.1;Parent=MsaG015000
Chr3 exon 81412698 81412907 81412698 ID=MsaT015000.1.exon5;Parent=MsaT015000.1
Chr3 CDS 81412698 81412907 81412698 ID=cds.MsaT015000.1;Parent=MsaT015000.1
Chr3 exon 81414103 81414192 81414103 ID=MsaT015000.1.exon4;Parent=MsaT015000.1
Chr3 CDS 81414103 81414192 81414103 ID=cds.MsaT015000.1;Parent=MsaT015000.1
Chr3 exon 81414291 81414325 81414291 ID=MsaT015000.1.exon3;Parent=MsaT015000.1
Chr3 CDS 81414291 81414325 81414291 ID=cds.MsaT015000.1;Parent=MsaT015000.1
Chr3 exon 81414422 81414527 81414422 ID=MsaT015000.1.exon2;Parent=MsaT015000.1
Chr3 CDS 81414422 81414527 81414422 ID=cds.MsaT015000.1;Parent=MsaT015000.1
Chr3 exon 81415708 81415842 81415708 ID=MsaT015000.1.exon1;Parent=MsaT015000.1
Chr3 CDS 81415708 81415842 81415708 ID=cds.MsaT015000.1;Parent=MsaT015000.1
Gene Sequence

>MsaT015000.1

ATGTCTTTTATTGGTACCCAACAAAAATGCAAGGCTTGTGAGAAAACGGTTTATCCCGTTGATCAGCTTTCTGCTGATGGAACTTCTTACCATAAAGCTTGTTTCAGATGCTCTCACTGCAAAGGAACTTTAAAGCTTAGCAGCTATTCATCAATGGAAGGTGTTCTTTACTGTAAGCCTCATTTTGAGCAGCTCTTCAAGGAGCATGGCAACTTTAGCAAGAACAAGAACTTCCAATCACCTGCAAAGGTAGCTGACGGTACAACTCCTGTGCTGACAAGGACCCCTAGCAAAGCTGCGGGCATGTTTTCTGGGACACAAGAAAAGTGTGCTACATGTGGCAAAACTGCTTATCCATTGGAGAAGGTAACAGTCGAAAGCCAGGCCTATCACAAATCATGTTTCAAGTGTTCACATGGTGGTTGTCCTATAACTCCATCAAATTATGCAGCCCTTGAGGGCATTTTGTATTGCAAGCACCATTTCTCTCAGCTTTTTAAGGAGAAAGGGAGCTACAATCATCTTATCAAGTCTGCATCAATCAAACGTGCAGCAGCCTCCGTTCCAGAATCTTGA
Protein sequence

>MsaT015000.1

MSFIGTQQKCKACEKTVYPVDQLSADGTSYHKACFRCSHCKGTLKLSSYSSMEGVLYCKPHFEQLFKEHGNFSKNKNFQSPAKVADGTTPVLTRTPSKAAGMFSGTQEKCATCGKTAYPLEKVTVESQAYHKSCFKCSHGGCPITPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASIKRAAASVPES*