AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024022

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024022 MtrunA17_Chr8g0384671 93.023 301 7 2 1 289 1 299 3.06e-164 457
MsaG024022 MtrunA17_Chr2g0293381 75.000 296 58 3 1 282 1 294 8.90e-125 358
MsaG024022 MtrunA17_Chr5g0401061 51.203 291 129 4 1 280 1 289 1.56e-61 197
MsaG024022 MtrunA17_Chr4g0054131 47.727 308 129 7 1 280 1 304 6.34e-60 193
MsaG024022 MtrunA17_Chr8g0383821 60.833 120 33 2 1 108 1 118 4.47e-44 146
MsaG024022 MtrunA17_Chr1g0195251 62.295 122 43 2 113 234 295 413 3.61e-41 147
MsaG024022 MtrunA17_Chr8g0342871 39.894 188 96 3 1 175 1 184 4.63e-34 125
MsaG024022 MtrunA17_Chr1g0166681 73.239 71 18 1 1 71 1 70 2.71e-29 110
MsaG024022 MtrunA17_Chr2g0329921 35.681 213 98 4 1 178 1 209 7.40e-29 112
MsaG024022 MtrunA17_Chr1g0195261 80.000 50 10 0 1 50 1 50 6.15e-23 89.4
MsaG024022 MtrunA17_Chr8g0384681 51.087 92 16 1 112 203 36 98 7.22e-21 85.1
MsaG024022 MtrunA17_Chr8g0383841 66.667 87 20 1 175 252 2 88 6.03e-16 72.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024022 AT1G49950.3 58.882 304 102 7 1 287 1 298 5.31e-79 242
MsaG024022 AT1G49950.1 58.882 304 102 7 1 287 1 298 5.31e-79 242
MsaG024022 AT1G49950.2 58.882 304 102 7 1 287 1 298 5.31e-79 242
MsaG024022 AT5G67580.2 47.797 295 137 5 1 280 1 293 1.24e-52 174
MsaG024022 AT5G67580.1 47.797 295 137 5 1 280 1 293 1.24e-52 174
MsaG024022 AT3G49850.1 47.020 302 135 7 1 285 1 294 3.80e-52 172
MsaG024022 AT3G49850.2 47.020 302 135 7 1 285 1 294 3.80e-52 172
MsaG024022 AT1G72740.2 35.821 268 142 6 1 257 1 249 3.81e-35 128
MsaG024022 AT1G72740.1 35.401 274 141 7 1 257 1 255 5.93e-33 122
MsaG024022 AT1G17520.4 37.500 200 92 4 1 175 1 192 1.69e-26 105
MsaG024022 AT1G17520.3 37.811 201 91 5 1 175 1 193 1.03e-25 103
MsaG024022 AT1G17520.1 38.660 194 86 4 1 169 1 186 1.11e-25 103
MsaG024022 AT1G17520.2 38.974 195 85 5 1 169 1 187 6.65e-25 101
MsaG024022 AT1G54260.1 47.826 69 36 0 112 180 6 74 7.82e-13 66.2

Find 82 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACCCACCCATGTTATTAT+TGG 0.233775 4:+94798676 MsaT024022.1:CDS
GAGCTCCAGGGAGAAGTCTA+AGG 0.278068 4:+94795291 MsaT024022.1:CDS
ATGGCTATCACTGCCGTTAC+TGG 0.296926 4:+94795363 MsaT024022.1:CDS
CAGATTAGATAACCTTATAT+TGG 0.305916 4:+94796347 MsaT024022.1:intron
GCAGAAAACCTCTATGAAAT+TGG 0.307733 4:+94798706 MsaT024022.1:CDS
TGTGGTTTGGATAGGATAAA+TGG 0.317432 4:+94795239 MsaT024022.1:intron
AGTCTGCCGGTGGCCGGTAT+TGG 0.318430 4:-94797616 None:intergenic
CCAAGCATGGGGTGGGAAAA+TGG 0.324906 4:+94795036 MsaT024022.1:CDS
TAGATATAGCTTCCAATATA+AGG 0.325779 4:-94796359 None:intergenic
AGAGACATGCCGCACATTCC+TGG 0.352882 4:+94795435 MsaT024022.1:CDS
AATTTGAGTGTGACGGGAAA+TGG 0.361800 4:+94795265 MsaT024022.1:CDS
CGGGAAATGGATCGAGCTCC+AGG 0.365659 4:+94795278 MsaT024022.1:CDS
AAATCTATCTCAGACTTTGT+AGG 0.366127 4:-94798749 None:intergenic
TCTGATGTCCATTTCTGCTT+AGG 0.367914 4:-94794984 None:intergenic
TTCCTGGTCCTGGTCCAAAA+AGG 0.410764 4:+94795451 MsaT024022.1:CDS
TTCAGGTGAAACGCAGGTAT+AGG 0.416662 4:+94798618 MsaT024022.1:intron
AACAAGACACGATTAAATTC+AGG 0.435715 4:-94795077 None:intergenic
CTTCCTCTGTCTGAATATGC+AGG 0.439039 4:-94798653 None:intergenic
TGGGTGCTCCTAAGCAGAAA+TGG 0.442291 4:+94794976 MsaT024022.1:CDS
CAAACAGGATGACAACTCTA+TGG 0.451537 4:+94795344 MsaT024022.1:intron
TGGAGAAATTTGAGTGTGAC+GGG 0.461904 4:+94795259 MsaT024022.1:CDS
GAGGAAGCAGCTCTTAAAGC+TGG 0.470003 4:+94795008 MsaT024022.1:CDS
CGCCATAGCAGAAGCTGAAG+AGG 0.472911 4:+94798850 MsaT024022.1:CDS
CTCTTGAGACTTGAAGAGGC+TGG 0.475264 4:-94795416 None:intergenic
AACTATTGCTTCTTTCATAG+AGG 0.478041 4:+94796413 MsaT024022.1:CDS
TGCCTCTTCAGCTTCTGCTA+TGG 0.491455 4:-94798852 None:intergenic
CCTCCCTTCCAATAATAACA+TGG 0.495257 4:-94798684 None:intergenic
TTCCTCTGTCTGAATATGCA+GGG 0.497922 4:-94798652 None:intergenic
AATCTATCTCAGACTTTGTA+GGG 0.500580 4:-94798748 None:intergenic
AAACCTCTATGAAATTGGAC+AGG 0.500951 4:+94798711 MsaT024022.1:CDS
AAGCTGGAGTTGCCAAGCAT+GGG 0.503893 4:+94795024 MsaT024022.1:CDS
TGCTCCCTTAGACTTCTCCC+TGG 0.506852 4:-94795296 None:intergenic
ATGCCGCACATTCCTGGTCC+TGG 0.511744 4:+94795441 MsaT024022.1:CDS
GATAGATTTAGAAATAGAAA+AGG 0.512772 4:+94798763 MsaT024022.1:CDS
TCGCTCAAATGTCGATCTCA+AGG 0.519219 4:+94795103 MsaT024022.1:CDS
ATCCCTGTCCAATTTCATAG+AGG 0.522008 4:-94798714 None:intergenic
ATATCTAGCTTGAATGAGCT+TGG 0.522209 4:+94796375 MsaT024022.1:CDS
ATCAACAATTTCATCATCAT+CGG 0.527962 4:-94795391 None:intergenic
AGCTGAAGAGGCAGCAAAGG+AGG 0.528236 4:+94798862 MsaT024022.1:CDS
AAAATGGCGTACAATAATCA+AGG 0.529843 4:+94795052 MsaT024022.1:CDS
ATGGAGAAATTTGAGTGTGA+CGG 0.530825 4:+94795258 MsaT024022.1:CDS
ATCTAGCGGAAAACTGATCA+AGG 0.531425 4:+94797676 MsaT024022.1:CDS
AAAGCTGGAGTTGCCAAGCA+TGG 0.532704 4:+94795023 MsaT024022.1:CDS
AGAAGCTGAAGAGGCAGCAA+AGG 0.535223 4:+94798859 MsaT024022.1:CDS
CCACCCATGTTATTATTGGA+AGG 0.535733 4:+94798680 MsaT024022.1:CDS
TCTTGAGACTTGAAGAGGCT+GGG 0.541739 4:-94795415 None:intergenic
CTTCACACTTCAATCAAGAC+GGG 0.544296 4:-94799440 None:intergenic
CTGTCTGAATATGCAGGGGT+AGG 0.544633 4:-94798647 None:intergenic
GGCAGCCTCTTGAGCAGACA+TGG 0.544900 4:-94798792 None:intergenic
AGAGGCAGCAAAGGAGGCAG+AGG 0.547850 4:+94798868 MsaT024022.1:CDS
CTCTTCAGCTTCTGCTATGG+CGG 0.551526 4:-94798849 None:intergenic
GACTGCTCGAGCAGCATATG+CGG 0.551764 4:-94798813 None:intergenic
AAGGTCCATGTCTGCTCAAG+AGG 0.553221 4:+94798787 MsaT024022.1:CDS
ATTTAGAAATAGAAAAGGTA+AGG 0.556910 4:+94798768 MsaT024022.1:CDS
TGGAGTTGCCAAGCATGGGG+TGG 0.557397 4:+94795028 MsaT024022.1:CDS
CACCCATGTTATTATTGGAA+GGG 0.560560 4:+94798681 MsaT024022.1:CDS
GGAGTTGCCAAGCATGGGGT+GGG 0.561098 4:+94795029 MsaT024022.1:CDS
CTAAAGTATCTTACATCTAG+CGG 0.565433 4:+94797662 MsaT024022.1:CDS
TCTAGCTTGAATGAGCTTGG+TGG 0.575119 4:+94796378 MsaT024022.1:CDS
CCTTCCAATAATAACATGGG+TGG 0.576377 4:-94798680 None:intergenic
GTAGGACCAATACCGGCCAC+CGG 0.579738 4:+94797610 MsaT024022.1:intron
TCTTCACACTTCAATCAAGA+CGG 0.581316 4:-94799441 None:intergenic
TCCTCTGTCTGAATATGCAG+GGG 0.589128 4:-94798651 None:intergenic
AGCTCCAGGGAGAAGTCTAA+GGG 0.592466 4:+94795292 MsaT024022.1:CDS
AGCTGCAATGAAAACACTGA+AGG 0.594087 4:+94798931 MsaT024022.1:CDS
CCATGTTATTATTGGAAGGG+AGG 0.596204 4:+94798684 MsaT024022.1:CDS
ATGTCTCTTGAGACTTGAAG+AGG 0.598346 4:-94795420 None:intergenic
CTCCCTTCCAATAATAACAT+GGG 0.599995 4:-94798683 None:intergenic
ATCATCGGATGGACCAGTAA+CGG 0.608006 4:-94795376 None:intergenic
TTATATTTCAGGTGAAACGC+AGG 0.613161 4:+94798612 MsaT024022.1:intron
ACAATTTCATCATCATCGGA+TGG 0.613826 4:-94795387 None:intergenic
GCTGCAATGAAAACACTGAA+GGG 0.616290 4:+94798932 MsaT024022.1:CDS
CTTCCAATAATAACATGGGT+GGG 0.618304 4:-94798679 None:intergenic
GCAGAAATGGACATCAGAAG+AGG 0.618364 4:+94794989 MsaT024022.1:CDS
GGACCAGGACCAGGAATGTG+CGG 0.620041 4:-94795444 None:intergenic
CTGCAATGAAAACACTGAAG+GGG 0.632379 4:+94798933 MsaT024022.1:CDS
AGCTGGAGTTGCCAAGCATG+GGG 0.639684 4:+94795025 MsaT024022.1:CDS
GCCAAGACTTACCGTCTCTG+AGG 0.642080 4:-94798963 None:intergenic
GGGGAGAAACACCTCAGAGA+CGG 0.644348 4:+94798952 MsaT024022.1:CDS
AACCTCTATGAAATTGGACA+GGG 0.650684 4:+94798712 MsaT024022.1:CDS
GGGAAATGGATCGAGCTCCA+GGG 0.651429 4:+94795279 MsaT024022.1:CDS
ACCCCTGCATATTCAGACAG+AGG 0.679893 4:+94798650 MsaT024022.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 94794975 94799449 94794975 ID=MsaG024022
Chr4 mRNA 94794975 94799449 94794975 ID=MsaT024022.1;Parent=MsaG024022
Chr4 exon 94794975 94795124 94794975 ID=MsaT024022.1.exon1;Parent=MsaT024022.1
Chr4 CDS 94794975 94795124 94794975 ID=cds.MsaT024022.1;Parent=MsaT024022.1
Chr4 exon 94795253 94795315 94795253 ID=MsaT024022.1.exon2;Parent=MsaT024022.1
Chr4 CDS 94795253 94795315 94795253 ID=cds.MsaT024022.1;Parent=MsaT024022.1
Chr4 exon 94795351 94795472 94795351 ID=MsaT024022.1.exon3;Parent=MsaT024022.1
Chr4 CDS 94795351 94795472 94795351 ID=cds.MsaT024022.1;Parent=MsaT024022.1
Chr4 exon 94796350 94796434 94796350 ID=MsaT024022.1.exon4;Parent=MsaT024022.1
Chr4 CDS 94796350 94796434 94796350 ID=cds.MsaT024022.1;Parent=MsaT024022.1
Chr4 exon 94797614 94797697 94797614 ID=MsaT024022.1.exon5;Parent=MsaT024022.1
Chr4 CDS 94797614 94797697 94797614 ID=cds.MsaT024022.1;Parent=MsaT024022.1
Chr4 exon 94798623 94798973 94798623 ID=MsaT024022.1.exon6;Parent=MsaT024022.1
Chr4 CDS 94798623 94798973 94798623 ID=cds.MsaT024022.1;Parent=MsaT024022.1
Chr4 exon 94799435 94799449 94799435 ID=MsaT024022.1.exon7;Parent=MsaT024022.1
Chr4 CDS 94799435 94799449 94799435 ID=cds.MsaT024022.1;Parent=MsaT024022.1
Gene Sequence

>MsaT024022.1

ATGGGTGCTCCTAAGCAGAAATGGACATCAGAAGAGGAAGCAGCTCTTAAAGCTGGAGTTGCCAAGCATGGGGTGGGAAAATGGCGTACAATAATCAAGGATCCTGAATTTAATCGTGTCTTGTTTATTCGCTCAAATGTCGATCTCAAGGATAAATGGAGAAATTTGAGTGTGACGGGAAATGGATCGAGCTCCAGGGAGAAGTCTAAGGGAGATGACAACTCTATGGCTATCACTGCCGTTACTGGTCCATCCGATGATGATGAAATTGTTGATGCCCAGCCTCTTCAAGTCTCAAGAGACATGCCGCACATTCCTGGTCCTGGTCCAAAAAGATTAGATAACCTTATATTGGAAGCTATATCTAGCTTGAATGAGCTTGGTGGTTCTAATACAACAACTATTGCTTCTTTCATAGAGGACCAATACCGGCCACCGGCAGACTTCAAAAAGTTGTTGTCAGCAAAACTAAAGTATCTTACATCTAGCGGAAAACTGATCAAGGTGAAACGCAGGTATAGGATTGCACCTACCCCTGCATATTCAGACAGAGGAAGACACCCACCCATGTTATTATTGGAAGGGAGGCAGAAAACCTCTATGAAATTGGACAGGGATGAGAGAAAATACCCTACAAAGTCTGAGATAGATTTAGAAATAGAAAAGGTAAGGTCCATGTCTGCTCAAGAGGCTGCCGCATATGCTGCTCGAGCAGTCGCTGATGCAGAAGCCGCCATAGCAGAAGCTGAAGAGGCAGCAAAGGAGGCAGAGGCTGCAGAAGCAGATGCAGCTGCAGCAGAAGCTTTTGCAGAAGCTGCAATGAAAACACTGAAGGGGAGAAACACCTCAGAGACGACGATCCCGTCTTGA
Protein sequence

>MsaT024022.1

MGAPKQKWTSEEEAALKAGVAKHGVGKWRTIIKDPEFNRVLFIRSNVDLKDKWRNLSVTGNGSSSREKSKGDDNSMAITAVTGPSDDDEIVDAQPLQVSRDMPHIPGPGPKRLDNLILEAISSLNELGGSNTTTIASFIEDQYRPPADFKKLLSAKLKYLTSSGKLIKVKRRYRIAPTPAYSDRGRHPPMLLLEGRQKTSMKLDRDERKYPTKSEIDLEIEKVRSMSAQEAAAYAARAVADAEAAIAEAEEAAKEAEAAEADAAAAEAFAEAAMKTLKGRNTSETTIPS*