AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014449


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014449 MtrunA17_Chr3g0105741 66.667 75 21 3 10 83 9 80 2.94e-26 100
MsaG014449 MtrunA17_Chr3g0105741 52.500 80 35 3 1 79 95 172 1.40e-15 72.0
MsaG014449 MtrunA17_Chr2g0316551 42.708 96 55 0 95 190 207 302 3.39e-19 84.3
MsaG014449 MtrunA17_Chr2g0325131 44.211 95 53 0 96 190 191 285 1.05e-18 82.8
MsaG014449 MtrunA17_Chr4g0040891 43.158 95 54 0 96 190 194 288 1.95e-18 82.0
MsaG014449 MtrunA17_Chr6g0463571 40.000 110 66 0 95 204 150 259 3.90e-14 69.7
MsaG014449 MtrunA17_Chr3g0107491 37.838 111 65 1 95 205 176 282 1.49e-13 68.6
MsaG014449 MtrunA17_Chr5g0432701 33.858 127 76 1 70 188 125 251 7.79e-13 66.2
MsaG014449 MtrunA17_Chr3g0128781 33.562 146 83 4 55 188 57 200 8.46e-13 66.2
MsaG014449 MtrunA17_Chr2g0329551 38.542 96 59 0 95 190 220 315 1.05e-12 66.2
MsaG014449 MtrunA17_Chr4g0036071 36.893 103 65 0 96 198 360 462 1.15e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014449 AT3G58120.1 41.593 113 65 1 78 190 185 296 5.11e-20 86.7
MsaG014449 AT2G42380.2 40.179 112 67 0 79 190 169 280 9.48e-20 85.9
MsaG014449 AT3G58120.2 43.299 97 54 1 78 174 185 280 1.39e-17 79.3
MsaG014449 AT2G42380.5 41.667 96 56 0 79 174 169 264 2.47e-17 78.6
MsaG014449 AT2G42380.1 35.714 112 61 1 79 190 169 269 3.78e-14 70.1
MsaG014449 AT1G43700.1 41.489 94 55 0 95 188 193 286 4.39e-13 67.4
MsaG014449 AT2G31370.5 37.615 109 68 0 95 203 200 308 6.67e-13 67.0
MsaG014449 AT2G40620.1 39.362 94 57 0 95 188 147 240 8.07e-13 67.0
MsaG014449 AT2G31370.2 37.615 109 68 0 95 203 200 308 9.89e-13 66.6
MsaG014449 AT2G31370.4 37.615 109 68 0 95 203 200 308 9.89e-13 66.6
MsaG014449 AT2G31370.1 37.615 109 68 0 95 203 200 308 9.89e-13 66.6
MsaG014449 AT2G31370.7 37.615 109 68 0 95 203 200 308 9.89e-13 66.6
MsaG014449 AT2G31370.3 37.615 109 68 0 95 203 200 308 9.89e-13 66.6
MsaG014449 AT2G31370.6 37.615 109 68 0 95 203 200 308 9.89e-13 66.6
MsaG014449 AT1G06070.1 28.421 190 111 5 19 190 122 304 1.73e-12 65.9
MsaG014449 AT1G06850.1 40.426 94 56 0 95 188 147 240 2.02e-12 65.5
MsaG014449 AT4G38900.2 37.634 93 58 0 96 188 394 486 2.13e-12 65.9
MsaG014449 AT4G38900.3 37.634 93 58 0 96 188 394 486 2.13e-12 65.9
MsaG014449 AT5G07160.1 40.860 93 55 0 96 188 48 140 4.42e-12 62.0
MsaG014449 AT2G21230.4 37.634 93 58 0 96 188 370 462 2.94e-11 62.4
MsaG014449 AT2G21230.1 37.634 93 58 0 96 188 370 462 2.94e-11 62.4

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCGATTTCAAGTCTTAAT+TGG 0.217186 3:+73367288 None:intergenic
GCTCGATTATATTGCTGATT+TGG 0.235809 3:-73367942 MsaT014449.1:CDS
GCATGACCAAGATTTGATTT+TGG 0.261059 3:+73368591 None:intergenic
CTAACCATGTTTGATTTCTT+AGG 0.274809 3:+73368753 None:intergenic
TTTATTTAACCAGCTCAAAT+TGG 0.278554 3:-73365485 MsaT014449.1:intron
ATAAGAGAGCTGAGCTGAAT+AGG 0.366186 3:-73367135 MsaT014449.1:CDS
TCAGCAGTGGTTGTTGACTA+TGG 0.374097 3:-73367318 MsaT014449.1:CDS
TTCGACCATGGCAACCCTCT+TGG 0.426532 3:-73368701 MsaT014449.1:CDS
GTATACCGTTTGAGCCTCTT+CGG 0.444805 3:+73368492 None:intergenic
TTCTTAGGATCCTAGCAAAT+CGG 0.449690 3:-73367994 MsaT014449.1:intron
AGTGTACCAAAATCAAATCT+TGG 0.459311 3:-73368597 MsaT014449.1:CDS
TTGCTGAAGCACAAAATAAG+AGG 0.463134 3:-73367087 MsaT014449.1:intron
TGGATCCGAAGAGGCTCAAA+CGG 0.511736 3:-73368497 MsaT014449.1:intron
AAACAAGAGGCGAGTAGCAG+TGG 0.519033 3:-73368660 MsaT014449.1:CDS
CGATTTCAAGTCTTAATTGG+TGG 0.523508 3:+73367291 None:intergenic
GTGCAGAAGTCCGATTTGCT+AGG 0.528204 3:+73367984 None:intergenic
TATTGCTGATTTGGAGCGGA+AGG 0.534850 3:-73367933 MsaT014449.1:CDS
GCATCTTCATGTGTTGGTGT+TGG 0.535119 3:-73368540 MsaT014449.1:CDS
AGACTTCAACTTGTGGGCGA+AGG 0.537269 3:+73367348 None:intergenic
GAGCTGAGCTGAATAGGCTG+AGG 0.543232 3:-73367129 MsaT014449.1:CDS
GGTAGTGCATCTTCATGTGT+TGG 0.548311 3:-73368546 MsaT014449.1:CDS
AACATGTTGCACACAGAAGA+GGG 0.550817 3:-73368783 MsaT014449.1:CDS
TTGCACACAGAAGAGGGACC+TGG 0.552875 3:-73368777 MsaT014449.1:CDS
ATGTTTGATTTCTTAGGCCC+AGG 0.557475 3:+73368759 None:intergenic
CTCTTCCAAGAGGGTTGCCA+TGG 0.560623 3:+73368696 None:intergenic
TACTCGCCTCTTGTTTATCG+AGG 0.587188 3:+73368667 None:intergenic
TGCACACAGAAGAGGGACCT+GGG 0.596481 3:-73368776 MsaT014449.1:CDS
ATGGTTAGACCCTTCTCACA+TGG 0.603263 3:-73368738 MsaT014449.1:CDS
AAACATGTTGCACACAGAAG+AGG 0.606246 3:-73368784 None:intergenic
AGCTGAGCTGAATAGGCTGA+GGG 0.608093 3:-73367128 MsaT014449.1:CDS
CATCATCAACATTTCGACCA+TGG 0.616367 3:-73368713 MsaT014449.1:CDS
AAAGAAAGGATACTTCAAGA+AGG 0.624481 3:-73367257 MsaT014449.1:intron
GATGATGATCCATGTGAGAA+GGG 0.625849 3:+73368729 None:intergenic
ATGCACTACCACCACTGATG+TGG 0.626577 3:+73368559 None:intergenic
TTAACCAGCTCAAATTGGAG+AGG 0.630183 3:-73365480 MsaT014449.1:intron
CATTGACCTCGATAAACAAG+AGG 0.636248 3:-73368673 MsaT014449.1:CDS
AGGTCAATGCTCTTCCAAGA+GGG 0.642523 3:+73368687 None:intergenic
TGATGATGATCCATGTGAGA+AGG 0.644091 3:+73368728 None:intergenic
AAATTGGAGAGGAAGCATCA+AGG 0.646077 3:-73365469 MsaT014449.1:CDS
GGACTTCTGCACAGAAATCG+AGG 0.651506 3:-73367973 MsaT014449.1:CDS
ATTATATTGCTGATTTGGAG+CGG 0.651960 3:-73367937 MsaT014449.1:CDS
GAGGTCAATGCTCTTCCAAG+AGG 0.655392 3:+73368686 None:intergenic
TGGGCCTAAGAAATCAAACA+TGG 0.705886 3:-73368757 MsaT014449.1:CDS
GCTGAGATGAACCACATCAG+TGG 0.710696 3:-73368570 MsaT014449.1:CDS
GAGATGAACCACATCAGTGG+TGG 0.730469 3:-73368567 MsaT014449.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 73365455 73368802 73365455 ID=MsaG014449
Chr3 mRNA 73365455 73368802 73365455 ID=MsaT014449.1;Parent=MsaG014449
Chr3 exon 73365455 73365494 73365455 ID=MsaT014449.1.exon5;Parent=MsaT014449.1
Chr3 CDS 73365455 73365494 73365455 ID=cds.MsaT014449.1;Parent=MsaT014449.1
Chr3 exon 73367088 73367169 73367088 ID=MsaT014449.1.exon4;Parent=MsaT014449.1
Chr3 CDS 73367088 73367169 73367088 ID=cds.MsaT014449.1;Parent=MsaT014449.1
Chr3 exon 73367258 73367384 73367258 ID=MsaT014449.1.exon3;Parent=MsaT014449.1
Chr3 CDS 73367258 73367384 73367258 ID=cds.MsaT014449.1;Parent=MsaT014449.1
Chr3 exon 73367919 73368009 73367919 ID=MsaT014449.1.exon2;Parent=MsaT014449.1
Chr3 CDS 73367919 73368009 73367919 ID=cds.MsaT014449.1;Parent=MsaT014449.1
Chr3 exon 73368498 73368802 73368498 ID=MsaT014449.1.exon1;Parent=MsaT014449.1
Chr3 CDS 73368498 73368802 73368498 ID=cds.MsaT014449.1;Parent=MsaT014449.1
Gene Sequence

>MsaT014449.1

ATGTTGCACACAGAAGAGGGACCTGGGCCTAAGAAATCAAACATGGTTAGACCCTTCTCACATGGATCATCATCAACATTTCGACCATGGCAACCCTCTTGGAAGAGCATTGACCTCGATAAACAAGAGGCGAGTAGCAGTGGAGTCAAAGCAACTCCACACGACAACAAAACTAAAAACATTAGTGTACCAAAATCAAATCTTGGTCATGCTGAGATGAACCACATCAGTGGTGGTAGTGCATCTTCATGTGTTGGTGTTGGTGATCAAGCAACACAAAAACTGGATCCGAAGAGGCTCAAACGGATCCTAGCAAATCGGACTTCTGCACAGAAATCGAGGTTGAAAAAGCTCGATTATATTGCTGATTTGGAGCGGAAGGAAAAATATTTGCAGACTGAGTTATCTTTCCTTCGCCCACAAGTTGAAGTCTATAAAAATCAGCAGTGGTTGTTGACTATGGAACACCACCAATTAAGACTTGAAATCGCTGTAAGAGAAAAAGAAAGGATACTTCAAGAAGTGGAGATTGAGAATAAGAGAGCTGAGCTGAATAGGCTGAGGGAGCTTCAGAAGAAACTAGTTGCTGAAGCACAAAATAAGAGCTCAAATTGGAGAGGAAGCATCAAGGATAATGCAAATTGA

Protein sequence

>MsaT014449.1

MLHTEEGPGPKKSNMVRPFSHGSSSTFRPWQPSWKSIDLDKQEASSSGVKATPHDNKTKNISVPKSNLGHAEMNHISGGSASSCVGVGDQATQKLDPKRLKRILANRTSAQKSRLKKLDYIADLERKEKYLQTELSFLRPQVEVYKNQQWLLTMEHHQLRLEIAVREKERILQEVEIENKRAELNRLRELQKKLVAEAQNKSSNWRGSIKDNAN*