AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041504


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041504 MtrunA17_Chr8g0341301 99.194 248 2 0 1 248 1 248 0.0 508
MsaG041504 MtrunA17_Chr8g0356941 100.000 116 0 0 65 180 1 116 9.80e-81 238
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041504 AT3G21350.1 68.085 235 74 1 14 248 24 257 8.97e-104 301
MsaG041504 AT3G21350.2 57.971 276 74 3 14 248 24 298 2.78e-95 281

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAGCTGCTTCCTGAGTTTC+AGG 0.111896 8:+7805232 None:intergenic
AATGCTTGCTTATTATATTT+TGG 0.131733 8:-7809232 MsaT041504.1:CDS
TGCAGGTCCTTGGTCAAGTA+TGG 0.233143 8:+7805186 None:intergenic
CAAAATTTCATTCTCTTTGC+AGG 0.250195 8:+7805169 None:intergenic
TTTGCTTCAGAGATCAATTA+TGG 0.270342 8:-7809572 MsaT041504.1:CDS
TCCTTAGCCGCCTTTGGTTC+CGG 0.292862 8:+7807134 None:intergenic
AGCATTGGAGTAACTTTATC+AGG 0.301759 8:+7809249 None:intergenic
TTCTCAGTTTCTGCTGTTGA+AGG 0.324297 8:+7805259 None:intergenic
CCGTCTAATATTCCCATTCC+TGG 0.340144 8:+7809639 None:intergenic
ATTGTCTCCTTAGCCGCCTT+TGG 0.366190 8:+7807128 None:intergenic
ATTCCGGTCATGTCTGTTCC+TGG 0.366828 8:+7809594 None:intergenic
TCATTCTCTTTGCAGGTCCT+TGG 0.382559 8:+7805176 None:intergenic
TCTGGAAATGGCGGCGGAGG+CGG 0.397221 8:+7805295 None:intergenic
CTTTATCACCTTTCTACGAT+TGG 0.408696 8:-7809503 MsaT041504.1:CDS
AATGGCGGCGGAGGCGGAGC+AGG 0.410280 8:+7805301 None:intergenic
TTGATCTCTGAAGCAAATTC+CGG 0.415070 8:+7809578 None:intergenic
TGAAAACGAGACTACAATTC+CGG 0.419986 8:-7807153 MsaT041504.1:CDS
GGAACATACCCTTCTGGAAA+TGG 0.420157 8:+7805283 None:intergenic
AAGTTGGAGAAGATAGGATA+TGG 0.422814 8:-7808484 MsaT041504.1:intron
TAGGGTTTCAGGAAAATGAT+TGG 0.446963 8:-7809342 MsaT041504.1:intron
CAGCTGCTTCCTGAGTTTCA+GGG 0.462781 8:+7805233 None:intergenic
TCCGGAACCAAAGGCGGCTA+AGG 0.463236 8:-7807135 MsaT041504.1:CDS
ATATGTGTTGAGTGAAGTTA+TGG 0.464467 8:-7809313 MsaT041504.1:CDS
CCTTCTGGAAATGGCGGCGG+AGG 0.468719 8:+7805292 None:intergenic
GTTCCTGGTGGTTGCGCCGT+CGG 0.472435 8:+7809609 None:intergenic
GAAGGTGGAACATACCCTTC+TGG 0.474764 8:+7805277 None:intergenic
TGAGAAAGGCCCTGAAACTC+AGG 0.475765 8:-7805242 MsaT041504.1:CDS
TCAGTTTCTGCTGTTGAAGG+TGG 0.476136 8:+7805262 None:intergenic
GGCGGCGGAGGCGGAGCAGG+TGG 0.477173 8:+7805304 None:intergenic
GGCACTATATTATATTGAAA+AGG 0.479926 8:-7808527 MsaT041504.1:CDS
GTGGATGATGAGAACGCATT+CGG 0.487999 8:+7809460 None:intergenic
GGAGATGGCGACACCAGGAA+TGG 0.494843 8:-7809652 None:intergenic
TTATCATGAAGAAGCAAAAG+AGG 0.501344 8:-7809278 MsaT041504.1:CDS
GCAGGTCCTTGGTCAAGTAT+GGG 0.505382 8:+7805187 None:intergenic
GTACCGACGGCGCAACCACC+AGG 0.505851 8:-7809612 MsaT041504.1:CDS
AAAATATAATAAGCAAGCAT+TGG 0.508033 8:+7809234 None:intergenic
TACTACGGCTGCATCTAAGT+TGG 0.510558 8:-7808500 MsaT041504.1:CDS
TATTGAAAAGGCATTTACTA+CGG 0.516735 8:-7808515 MsaT041504.1:CDS
GACTACAATTCCGGAACCAA+AGG 0.516918 8:-7807144 MsaT041504.1:CDS
GCATCTAAGTTGGAGAAGAT+AGG 0.520492 8:-7808490 MsaT041504.1:CDS
GAGATGGCGACACCAGGAAT+GGG 0.535997 8:-7809651 MsaT041504.1:CDS
GCGCCGGAGATGGCGACACC+AGG 0.541201 8:-7809657 None:intergenic
CCTCCGCCGCCATTTCCAGA+AGG 0.546586 8:-7805292 MsaT041504.1:CDS
CTTAAAAGAAATTAAGCGAG+TGG 0.550328 8:-7807102 MsaT041504.1:CDS
TACCCTTCTGGAAATGGCGG+CGG 0.556461 8:+7805289 None:intergenic
CTCCGCCGCCATTTCCAGAA+GGG 0.562412 8:-7805291 MsaT041504.1:CDS
TCTTGCTTCTTTGCAACGCA+AGG 0.562969 8:-7807072 MsaT041504.1:intron
TTAGAAGTCCAATCGTAGAA+AGG 0.566992 8:+7809495 None:intergenic
TATCATGAAGAAGCAAAAGA+GGG 0.569459 8:-7809277 MsaT041504.1:CDS
TCAACAGCAGAAACTGAGAA+AGG 0.597039 8:-7805256 MsaT041504.1:CDS
CCAGGAATGGGAATATTAGA+CGG 0.601116 8:-7809639 MsaT041504.1:CDS
CCACCAGGAACAGACATGAC+CGG 0.607416 8:-7809597 MsaT041504.1:CDS
TACAATTCCGGAACCAAAGG+CGG 0.617747 8:-7807141 MsaT041504.1:CDS
AAGACGAGGTTACGATCAAG+TGG 0.618461 8:+7809537 None:intergenic
TCAAGTATGGGATCAACAGT+AGG 0.624569 8:+7805199 None:intergenic
ATTAGACGGCGGAGTACCGA+CGG 0.637582 8:-7809625 MsaT041504.1:CDS
AATTACGTACGTGAGTTGAG+AGG 0.648037 8:+7809431 None:intergenic
GTGAGTTGAGAGGAATCAAG+TGG 0.655510 8:+7809441 None:intergenic
ACATACCCTTCTGGAAATGG+CGG 0.656583 8:+7805286 None:intergenic
AAGCGAAGTAATCGAAGACG+AGG 0.677731 8:+7809523 None:intergenic
CCGGTCATGTCTGTTCCTGG+TGG 0.698857 8:+7809597 None:intergenic
GTTGATCCCATACTTGACCA+AGG 0.698945 8:-7805193 MsaT041504.1:CDS
AGACGAGGTTACGATCAAGT+GGG 0.705573 8:+7809538 None:intergenic
GGAATGGGAATATTAGACGG+CGG 0.763011 8:-7809636 MsaT041504.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 7805168 7809670 7805168 ID=MsaG041504
Chr8 mRNA 7805168 7809670 7805168 ID=MsaT041504.1;Parent=MsaG041504
Chr8 exon 7805168 7805329 7805168 ID=MsaT041504.1.exon5;Parent=MsaT041504.1
Chr8 CDS 7805168 7805329 7805168 ID=cds.MsaT041504.1;Parent=MsaT041504.1
Chr8 exon 7807073 7807182 7807073 ID=MsaT041504.1.exon4;Parent=MsaT041504.1
Chr8 CDS 7807073 7807182 7807073 ID=cds.MsaT041504.1;Parent=MsaT041504.1
Chr8 exon 7808485 7808554 7808485 ID=MsaT041504.1.exon3;Parent=MsaT041504.1
Chr8 CDS 7808485 7808554 7808485 ID=cds.MsaT041504.1;Parent=MsaT041504.1
Chr8 exon 7809179 7809353 7809179 ID=MsaT041504.1.exon2;Parent=MsaT041504.1
Chr8 CDS 7809179 7809353 7809179 ID=cds.MsaT041504.1;Parent=MsaT041504.1
Chr8 exon 7809441 7809670 7809441 ID=MsaT041504.1.exon1;Parent=MsaT041504.1
Chr8 CDS 7809441 7809670 7809441 ID=cds.MsaT041504.1;Parent=MsaT041504.1
Gene Sequence

>MsaT041504.1

ATGGCGACACCAGGAATGGGAATATTAGACGGCGGAGTACCGACGGCGCAACCACCAGGAACAGACATGACCGGAATTTGCTTCAGAGATCAATTATGGCTAAACACATACCCACTTGATCGTAACCTCGTCTTCGATTACTTCGCTTTATCACCTTTCTACGATTGGACTTCTAACAACGAACAACTCCGAATGCGTTCTCATCATCCACTTGATTCCTCTCAACTCACGAAAATGATTGGTATTGAATATGTGTTGAGTGAAGTTATGGAACCTCATCTTTTTATCATGAAGAAGCAAAAGAGGGATAGTCCTGATAAAGTTACTCCAATGCTTGCTTATTATATTTTGGATGGTTCAATTTATCAAGCTCCTCAATTATCCAATGTTTTTGCTGCTAGAATTGGAAGGGCACTATATTATATTGAAAAGGCATTTACTACGGCTGCATCTAAGTTGGAGAAGATAGGATATGTTGATTCTGAAAACGAGACTACAATTCCGGAACCAAAGGCGGCTAAGGAGACAATTGACTTAAAAGAAATTAAGCGAGTGGATCATATTCTTGCTTCTTTGCAACGCAAGCTTCCACCTGCTCCGCCTCCGCCGCCATTTCCAGAAGGGTATGTTCCACCTTCAACAGCAGAAACTGAGAAAGGCCCTGAAACTCAGGAAGCAGCTGAGTCACTAGCACCTACTGTTGATCCCATACTTGACCAAGGACCTGCAAAGAGAATGAAATTTTGA

Protein sequence

>MsaT041504.1

MATPGMGILDGGVPTAQPPGTDMTGICFRDQLWLNTYPLDRNLVFDYFALSPFYDWTSNNEQLRMRSHHPLDSSQLTKMIGIEYVLSEVMEPHLFIMKKQKRDSPDKVTPMLAYYILDGSIYQAPQLSNVFAARIGRALYYIEKAFTTAASKLEKIGYVDSENETTIPEPKAAKETIDLKEIKRVDHILASLQRKLPPAPPPPPFPEGYVPPSTAETEKGPETQEAAESLAPTVDPILDQGPAKRMKF*