AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025389

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025389 MtrunA17_Chr5g0401061 98.976 293 3 0 1 293 1 293 0.0 584
MsaG025389 MtrunA17_Chr4g0054131 65.372 309 90 6 1 293 1 308 6.21e-103 303
MsaG025389 MtrunA17_Chr2g0293381 48.548 241 117 5 1 236 1 239 3.08e-66 209
MsaG025389 MtrunA17_Chr8g0384671 48.117 239 119 5 1 236 1 237 1.08e-63 202
MsaG025389 MtrunA17_Chr1g0166681 66.292 89 28 1 1 89 1 87 5.36e-33 120
MsaG025389 MtrunA17_Chr8g0342871 32.862 283 159 6 1 270 1 265 7.00e-32 119
MsaG025389 MtrunA17_Chr2g0329921 39.048 210 105 3 1 187 1 210 1.04e-31 119
MsaG025389 MtrunA17_Chr8g0383821 43.519 108 60 1 1 107 1 108 6.17e-24 94.7
MsaG025389 MtrunA17_Chr1g0195261 66.000 50 17 0 1 50 1 50 2.87e-16 71.6
MsaG025389 MtrunA17_Chr1g0195251 38.017 121 71 2 121 241 295 411 4.77e-14 72.0
MsaG025389 MtrunA17_Chr3g0107471 60.377 53 17 2 5 56 569 618 5.46e-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
MsaG025389 AT5G67580.2 53.925 293 131 1 1 289 1 293 1.41e-75 233
MsaG025389 AT5G67580.1 53.925 293 131 1 1 289 1 293 1.41e-75 233
MsaG025389 AT1G49950.3 48.971 243 116 5 1 238 1 240 1.19e-70 221
MsaG025389 AT1G49950.1 48.971 243 116 5 1 238 1 240 1.19e-70 221
MsaG025389 AT1G49950.2 48.971 243 116 5 1 238 1 240 1.19e-70 221
MsaG025389 AT3G49850.1 51.186 295 132 5 1 289 1 289 3.05e-66 209
MsaG025389 AT3G49850.2 51.186 295 132 5 1 289 1 289 3.05e-66 209
MsaG025389 AT1G72740.2 33.449 287 168 5 1 284 1 267 9.63e-32 119
MsaG025389 AT1G72740.1 33.449 287 174 6 1 284 1 273 3.73e-30 115
MsaG025389 AT1G17520.4 36.500 200 110 3 1 187 1 196 1.53e-29 114
MsaG025389 AT1G17520.1 32.990 291 161 7 1 275 1 273 3.96e-29 113
MsaG025389 AT1G17520.3 36.816 201 109 4 1 187 1 197 7.42e-29 112
MsaG025389 AT1G17520.2 33.219 292 160 8 1 275 1 274 1.59e-28 111

Find 72 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTAAGCCTCTTTCAGTTTC+TGG 0.037607 5:+7705490 MsaT025389.1:CDS
GGCTTAGGAGCTGCAACTTC+TGG 0.214227 5:-7705475 None:intergenic
AATGCAGAAGACTTAATATT+TGG 0.225595 5:+7708026 MsaT025389.1:CDS
CGCAAAATGGTGCTGAAATC+TGG 0.244024 5:-7705055 None:intergenic
TAACCTTGATATTTGTTCTT+TGG 0.249384 5:-7705527 None:intergenic
ACATAAATGTGACTGCAATA+TGG 0.284211 5:+7705350 MsaT025389.1:CDS
TTCTGGATTATATTGAACTA+TGG 0.296937 5:-7705458 None:intergenic
CTAGGAGAAAGCATTCAAAA+TGG 0.335895 5:-7708119 None:intergenic
ATTTGAACGCATGCGCAAAA+TGG 0.355071 5:-7705068 None:intergenic
CATAAATGTGACTGCAATAT+GGG 0.356271 5:+7705351 MsaT025389.1:CDS
TGACAATCGAGTCGAATATA+AGG 0.364822 5:-7706068 None:intergenic
TCAAATACGGGGCTGGAAAA+TGG 0.375403 5:+7705014 MsaT025389.1:CDS
TCTGCAGTCCATTTCTGCTT+AGG 0.379164 5:-7704962 None:intergenic
GAACTATGGCGGTCGAGGTT+GGG 0.406154 5:-7705444 None:intergenic
AGCAGCTGCAAAAGCAGTTG+CGG 0.409911 5:+7707892 MsaT025389.1:CDS
GACAGTAACTTTATGAGGTT+TGG 0.411444 5:-7707233 None:intergenic
CGCCATTGCTGCTTATATAG+AGG 0.411827 5:+7706122 MsaT025389.1:CDS
ATGCTCTTCCTTGTTACTCC+TGG 0.423977 5:+7707751 MsaT025389.1:CDS
TGGGTGCTCCTAAGCAGAAA+TGG 0.425779 5:+7704954 MsaT025389.1:CDS
GAAGAGGCAGCTCTGAAAGC+TGG 0.428221 5:+7704986 MsaT025389.1:CDS
AGCTGCAAAAGCAGTTGCGG+AGG 0.430575 5:+7707895 MsaT025389.1:CDS
TTGTTGACAGTAACTTTATG+AGG 0.436494 5:-7707238 None:intergenic
CCAGAAACTGAAAGAGGCTT+AGG 0.456807 5:-7705490 None:intergenic
CGACTCGATTGTCAAGTTGA+AGG 0.467379 5:+7706077 MsaT025389.1:CDS
TGAACTATGGCGGTCGAGGT+TGG 0.475508 5:-7705445 None:intergenic
AAAGCTGGAGTAGTCAAATA+CGG 0.485337 5:+7705001 MsaT025389.1:CDS
GTCAACAAAACTGAAGCATA+TGG 0.488294 5:+7707253 MsaT025389.1:CDS
TAAGCTATGAACAGGACAAA+TGG 0.495183 5:+7705323 MsaT025389.1:intron
TGACTGCAATATGGGGATCC+AGG 0.496295 5:+7705359 MsaT025389.1:CDS
AAGCCTCTTTCAGTTTCTGG+TGG 0.504900 5:+7705493 MsaT025389.1:CDS
CTTCCTTGTTACTCCTGGAA+GGG 0.505904 5:+7707756 MsaT025389.1:CDS
GAAATCTGGGTCTGTAAGAA+TGG 0.507475 5:-7705041 None:intergenic
GCGGCAATGTCAGAACCCTT+TGG 0.508392 5:-7706102 None:intergenic
TCTTCCTTGTTACTCCTGGA+AGG 0.509910 5:+7707755 MsaT025389.1:CDS
TTATGAGGTTTGGTGGAGAC+CGG 0.510215 5:-7707223 None:intergenic
GACAGGTAAATCATAAGTAC+AGG 0.511866 5:+7707690 MsaT025389.1:intron
AGTAACTTTATGAGGTTTGG+TGG 0.512273 5:-7707230 None:intergenic
TAGGAGAAAGCATTCAAAAT+GGG 0.512658 5:-7708118 None:intergenic
TGCTGTCTCAGCCTCAGCAA+TGG 0.514472 5:-7707927 None:intergenic
GGCTGAGACAGCAGCAAGGG+AGG 0.514772 5:+7707937 MsaT025389.1:CDS
TGGCGGTCGAGGTTGGGTGG+TGG 0.532625 5:-7705438 None:intergenic
GGAGTAGTCAAATACGGGGC+TGG 0.532847 5:+7705007 MsaT025389.1:CDS
CTTCCAAAGAACAAATATCA+AGG 0.532967 5:+7705524 MsaT025389.1:CDS
AAGCTGGAGTAGTCAAATAC+GGG 0.536563 5:+7705002 MsaT025389.1:CDS
GCAAAATGGTGCTGAAATCT+GGG 0.539501 5:-7705054 None:intergenic
ATATTGAACTATGGCGGTCG+AGG 0.543535 5:-7705449 None:intergenic
CCTTGTTACTCCTGGAAGGG+AGG 0.547136 5:+7707759 MsaT025389.1:CDS
GGCAGAAGCTGCCATTGCTG+AGG 0.547830 5:+7707916 MsaT025389.1:CDS
TACCTCTATATAAGCAGCAA+TGG 0.560953 5:-7706124 None:intergenic
TGAGGCTGAGACAGCAGCAA+GGG 0.562956 5:+7707934 MsaT025389.1:CDS
CTATGGCGGTCGAGGTTGGG+TGG 0.567809 5:-7705441 None:intergenic
TTCTGCTTAGGAGCACCCAT+TGG 0.569658 5:-7704950 None:intergenic
TACCTCAATAGGATCAATAC+CGG 0.570066 5:+7707204 MsaT025389.1:intron
GAAATGGACTGCAGAAGAAG+AGG 0.574527 5:+7704970 MsaT025389.1:CDS
ATTCCACCAGAAACTGAAAG+AGG 0.576366 5:-7705496 None:intergenic
TGTCAAGTTGAAGGAGCCAA+AGG 0.577322 5:+7706086 MsaT025389.1:CDS
GCGTTCAAATGTAGATCTCA+AGG 0.582023 5:+7705081 MsaT025389.1:CDS
CTCTATATAAGCAGCAATGG+CGG 0.582614 5:-7706121 None:intergenic
GTCAAGTTGAAGGAGCCAAA+GGG 0.586146 5:+7706087 MsaT025389.1:CDS
GAGGGGTGTGACAGCTCAAG+AGG 0.591616 5:+7707862 MsaT025389.1:CDS
CCTCCCTTCCAGGAGTAACA+AGG 0.596501 5:-7707759 None:intergenic
CTGAGGCTGAGACAGCAGCA+AGG 0.616768 5:+7707933 MsaT025389.1:CDS
AACAGCTGAAGCTGAAGCAG+AGG 0.618779 5:+7707964 MsaT025389.1:CDS
GTTTGCAAAAGCAGCAACGA+AGG 0.621698 5:+7707997 MsaT025389.1:CDS
CTGAAGCATATGGTGGCAAG+CGG 0.627992 5:+7707263 MsaT025389.1:CDS
AATATGGGGATCCAGGCAGA+AGG 0.633799 5:+7705366 MsaT025389.1:CDS
TGGATTATATTGAACTATGG+CGG 0.635820 5:-7705455 None:intergenic
GGCAAGCGGCAAATTAGTGA+AGG 0.638026 5:+7707277 MsaT025389.1:CDS
GCTATGAACAGGACAAATGG+AGG 0.639785 5:+7705326 MsaT025389.1:intron
ATAAATGTGACTGCAATATG+GGG 0.648699 5:+7705352 MsaT025389.1:CDS
AACAAAACTGAAGCATATGG+TGG 0.677408 5:+7707256 MsaT025389.1:CDS
AGCTGGAGTAGTCAAATACG+GGG 0.718064 5:+7705003 MsaT025389.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 7704953 7708127 7704953 ID=MsaG025389
Chr5 mRNA 7704953 7708127 7704953 ID=MsaT025389.1;Parent=MsaG025389
Chr5 exon 7704953 7705102 7704953 ID=MsaT025389.1.exon1;Parent=MsaT025389.1
Chr5 CDS 7704953 7705102 7704953 ID=cds.MsaT025389.1;Parent=MsaT025389.1
Chr5 exon 7705337 7705545 7705337 ID=MsaT025389.1.exon2;Parent=MsaT025389.1
Chr5 CDS 7705337 7705545 7705337 ID=cds.MsaT025389.1;Parent=MsaT025389.1
Chr5 exon 7706059 7706143 7706059 ID=MsaT025389.1.exon3;Parent=MsaT025389.1
Chr5 CDS 7706059 7706143 7706059 ID=cds.MsaT025389.1;Parent=MsaT025389.1
Chr5 exon 7707215 7707298 7707215 ID=MsaT025389.1.exon4;Parent=MsaT025389.1
Chr5 CDS 7707215 7707298 7707215 ID=cds.MsaT025389.1;Parent=MsaT025389.1
Chr5 exon 7707695 7708047 7707695 ID=MsaT025389.1.exon5;Parent=MsaT025389.1
Chr5 CDS 7707695 7708047 7707695 ID=cds.MsaT025389.1;Parent=MsaT025389.1
Chr5 exon 7708118 7708127 7708118 ID=MsaT025389.1.exon6;Parent=MsaT025389.1
Chr5 CDS 7708118 7708127 7708118 ID=cds.MsaT025389.1;Parent=MsaT025389.1
Gene Sequence

>MsaT025389.1

ATGGGTGCTCCTAAGCAGAAATGGACTGCAGAAGAAGAGGCAGCTCTGAAAGCTGGAGTAGTCAAATACGGGGCTGGAAAATGGCGTACCATTCTTACAGACCCAGATTTCAGCACCATTTTGCGCATGCGTTCAAATGTAGATCTCAAGGACAAATGGAGGAACATAAATGTGACTGCAATATGGGGATCCAGGCAGAAGGCAAAACTTGCACTTAAAAAGAACCTACCACCCCCGAAAAATGAAAATAACCACCACCCAACCTCGACCGCCATAGTTCAATATAATCCAGAAGTTGCAGCTCCTAAGCCTCTTTCAGTTTCTGGTGGAATATCTACTTCCAAAGAACAAATATCAAGATTGGACAGCCTTATATTCGACTCGATTGTCAAGTTGAAGGAGCCAAAGGGTTCTGACATTGCCGCCATTGCTGCTTATATAGAGGATCAATACCGGTCTCCACCAAACCTCATAAAGTTACTGTCAACAAAACTGAAGCATATGGTGGCAAGCGGCAAATTAGTGAAGGTAAATCATAAGTACAGGATTGCAACAAATTCAACAAAAACATCCGAGAAAAGAAGATGCTCTTCCTTGTTACTCCTGGAAGGGAGGCCAAAAGATTCTCCAAAAGCAGAGAAAACTGATGCCAACATCCTTTCAAAATCTCAAATTGATGTTGAGCTTTTAAAAATGAGGGGTGTGACAGCTCAAGAGGTAGCAGCAGCAGCTGCAAAAGCAGTTGCGGAGGCAGAAGCTGCCATTGCTGAGGCTGAGACAGCAGCAAGGGAGGCTGAAACAGCTGAAGCTGAAGCAGAGGCTGCACGTGTGTTTGCAAAAGCAGCAACGAAGGCACTAAAATGCAGAAGACTTAATATTTGCCCATTTTGA
Protein sequence

>MsaT025389.1

MGAPKQKWTAEEEAALKAGVVKYGAGKWRTILTDPDFSTILRMRSNVDLKDKWRNINVTAIWGSRQKAKLALKKNLPPPKNENNHHPTSTAIVQYNPEVAAPKPLSVSGGISTSKEQISRLDSLIFDSIVKLKEPKGSDIAAIAAYIEDQYRSPPNLIKLLSTKLKHMVASGKLVKVNHKYRIATNSTKTSEKRRCSSLLLLEGRPKDSPKAEKTDANILSKSQIDVELLKMRGVTAQEVAAAAAKAVAEAEAAIAEAETAAREAETAEAEAEAARVFAKAATKALKCRRLNICPF*