AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017446


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017446 MtrunA17_Chr1g0203051 51.316 228 72 4 14 202 20 247 1.13e-63 211
MsaG017446 MtrunA17_Chr8g0389811 39.007 141 52 4 47 156 58 195 2.02e-26 103
MsaG017446 MtrunA17_Chr2g0331371 32.000 125 57 3 54 150 36 160 2.04e-16 76.3
MsaG017446 MtrunA17_Chr1g0171741 29.442 197 104 6 9 175 71 262 3.89e-15 73.6
MsaG017446 MtrunA17_Chr2g0287651 25.703 249 137 7 4 207 3 248 2.67e-13 70.1
MsaG017446 MtrunA17_Chr7g0228051 51.471 68 30 1 18 82 18 85 1.48e-12 62.4
MsaG017446 MtrunA17_Chr8g0340801 50.847 59 18 1 156 203 1 59 2.88e-12 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 56 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATAAAATCTACCACGGATA+TGG 0.198700 3:+109336534 None:intergenic
TCCCAATGTGTTTACATAAT+CGG 0.282947 3:-109337971 None:intergenic
CAACTAAACGATCCTGAAAA+TGG 0.285819 3:+109337618 None:intergenic
CCCAATGTGTTTACATAATC+GGG 0.288280 3:-109337970 None:intergenic
CCTCTGAACCTTCCGCATTA+AGG 0.302211 3:+109337940 None:intergenic
GATTTGTTGGTTGCAGAGTT+TGG 0.306543 3:-109336616 MsaT017446.1:CDS
TTTGTCATAGAGAAGGTTAC+AGG 0.325495 3:-109337495 MsaT017446.1:CDS
CTGATACTTCCCATCCAAAA+AGG 0.344955 3:+109337339 None:intergenic
ATTTGTTGGTTGCAGAGTTT+GGG 0.383219 3:-109336615 MsaT017446.1:CDS
ATTGATTCCATCTTTACGTT+TGG 0.383590 3:+109336023 None:intergenic
TGAAACTATGTGGGATTTGT+TGG 0.439762 3:-109336629 MsaT017446.1:CDS
AAGTTCAAACGGTGTATGTT+CGG 0.449433 3:-109336673 MsaT017446.1:CDS
ATGAAAATGATGAGGAAAGT+TGG 0.454308 3:-109337268 MsaT017446.1:CDS
GACATGTACAGTTCGTTGTA+TGG 0.455744 3:-109337734 MsaT017446.1:CDS
AAATTCAAGTACACGCTGAT+TGG 0.456960 3:-109337408 MsaT017446.1:CDS
ATAAAATCTACCACGGATAT+GGG 0.460719 3:+109336535 None:intergenic
TTGGGTTGGAAAATAATAAG+TGG 0.477062 3:-109336597 MsaT017446.1:CDS
TTGAAGAGTTTGAAACTATG+TGG 0.492334 3:-109336639 MsaT017446.1:CDS
AACTAGTAGGTGTGGTTGCA+TGG 0.492607 3:-109337434 MsaT017446.1:CDS
CATGGACAATAGCTCTTGTT+CGG 0.498690 3:-109337792 MsaT017446.1:CDS
ACAACGAGCAATTCAAGAAC+AGG 0.501621 3:-109337166 MsaT017446.1:CDS
TGAAGAGTTTGAAACTATGT+GGG 0.510185 3:-109336638 MsaT017446.1:CDS
TCGCTCATCTTCCTATGTGC+AGG 0.519995 3:+109337307 None:intergenic
AGAGAGCGAAGGCAACTAGT+AGG 0.522394 3:-109337447 MsaT017446.1:intron
CCTTAAAATTAATTCTGTCA+AGG 0.525060 3:+109337669 None:intergenic
AATTTGTCCCGAAGTTCAAA+CGG 0.526146 3:-109336684 MsaT017446.1:intron
TGCGGAAGGTTCAGAGGTAG+AGG 0.537083 3:-109337934 MsaT017446.1:intron
CAAGTACACGCTGATTGGTA+TGG 0.541613 3:-109337403 MsaT017446.1:CDS
ACCTTTGTTTGTCATAGAGA+AGG 0.542041 3:-109337502 MsaT017446.1:CDS
GTGCAACTTTGACGATGAAA+CGG 0.547511 3:-109337711 MsaT017446.1:CDS
ACATGTACAGTTCGTTGTAT+GGG 0.550841 3:-109337733 MsaT017446.1:CDS
GTTGGTTGCAGAGTTTGGGT+TGG 0.554814 3:-109336611 MsaT017446.1:CDS
CCCCGATTATGTAAACACAT+TGG 0.555220 3:+109337969 None:intergenic
TCGCTGCGAATGTCTTGTGA+TGG 0.559466 3:-109336055 MsaT017446.1:CDS
CTGTATGAGAAGCGGAGCAA+TGG 0.574881 3:-109336565 MsaT017446.1:CDS
GGAGAGTGATGTATGTTCCT+CGG 0.577170 3:-109337771 MsaT017446.1:CDS
TGAAACGGCGGTTGATTGCA+TGG 0.577332 3:-109337696 MsaT017446.1:CDS
TCATAGAGAAGGTTACAGGT+TGG 0.583611 3:-109337491 MsaT017446.1:CDS
CCTTAATGCGGAAGGTTCAG+AGG 0.595778 3:-109337940 MsaT017446.1:CDS
ACGCTGATTGGTATGGTCGA+TGG 0.599022 3:-109337396 MsaT017446.1:CDS
TTCGTGAGCTGTATGAGAAG+CGG 0.614131 3:-109336573 MsaT017446.1:CDS
ACCTTCTCTATGACAAACAA+AGG 0.615884 3:+109337501 None:intergenic
GGATGCAACCTTAATGCGGA+AGG 0.616985 3:-109337948 MsaT017446.1:CDS
AGGGAATGCTACCTGCACAT+AGG 0.627711 3:-109337318 MsaT017446.1:CDS
GCGAAGGCAACTAGTAGGTG+TGG 0.634169 3:-109337442 MsaT017446.1:intron
AATACCAAATGAAAATGATG+AGG 0.636392 3:-109337276 MsaT017446.1:CDS
CCAATGTGTTTACATAATCG+GGG 0.641860 3:-109337969 MsaT017446.1:CDS
TGGTCAACTGCCCATATCCG+TGG 0.650014 3:-109336545 MsaT017446.1:CDS
GTCTTCGACATCTTCATCCG+AGG 0.652680 3:+109337754 None:intergenic
GAGCAATTCAAGAACAGGAG+AGG 0.656322 3:-109337161 MsaT017446.1:CDS
CTGGTTTCAGAACAACCTCA+AGG 0.660159 3:-109336511 MsaT017446.1:intron
AACCAGCATAAAATCTACCA+CGG 0.675988 3:+109336528 None:intergenic
TCGGGGATGCAACCTTAATG+CGG 0.677096 3:-109337952 MsaT017446.1:CDS
AATGTCTTGTGATGGAACGA+TGG 0.702239 3:-109336047 MsaT017446.1:CDS
CAACTTTGACGATGAAACGG+CGG 0.704083 3:-109337708 MsaT017446.1:CDS
TAGGGTCGGATGAAATCATG+CGG 0.716997 3:-109337643 MsaT017446.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 109336036 109337988 109336036 ID=MsaG017446
Chr3 mRNA 109336036 109337988 109336036 ID=MsaT017446.1;Parent=MsaG017446
Chr3 exon 109336036 109336097 109336036 ID=MsaT017446.1.exon7;Parent=MsaT017446.1
Chr3 CDS 109336036 109336097 109336036 ID=cds.MsaT017446.1;Parent=MsaT017446.1
Chr3 exon 109336512 109336692 109336512 ID=MsaT017446.1.exon6;Parent=MsaT017446.1
Chr3 CDS 109336512 109336692 109336512 ID=cds.MsaT017446.1;Parent=MsaT017446.1
Chr3 exon 109337157 109337229 109337157 ID=MsaT017446.1.exon5;Parent=MsaT017446.1
Chr3 CDS 109337157 109337229 109337157 ID=cds.MsaT017446.1;Parent=MsaT017446.1
Chr3 exon 109337259 109337458 109337259 ID=MsaT017446.1.exon4;Parent=MsaT017446.1
Chr3 CDS 109337259 109337458 109337259 ID=cds.MsaT017446.1;Parent=MsaT017446.1
Chr3 exon 109337489 109337545 109337489 ID=MsaT017446.1.exon3;Parent=MsaT017446.1
Chr3 CDS 109337489 109337545 109337489 ID=cds.MsaT017446.1;Parent=MsaT017446.1
Chr3 exon 109337586 109337816 109337586 ID=MsaT017446.1.exon2;Parent=MsaT017446.1
Chr3 CDS 109337586 109337816 109337586 ID=cds.MsaT017446.1;Parent=MsaT017446.1
Chr3 exon 109337935 109337988 109337935 ID=MsaT017446.1.exon1;Parent=MsaT017446.1
Chr3 CDS 109337935 109337988 109337935 ID=cds.MsaT017446.1;Parent=MsaT017446.1
Gene Sequence

>MsaT017446.1

ATGTGTTTACATAATCGGGGATGCAACCTTAATGCGGAAGGTTCAGAGGTAGAGGACATGGACAATAGCTCTTGTTCGGAGAGTGATGTATGTTCCTCGGATGAAGATGTCGAAGACATGTACAGTTCGTTGTATGGGTGCAACTTTGACGATGAAACGGCGGTTGATTGCATGGCTGACCTTGACAGAATTAATTTTAAGGAAATAGGGTCGGATGAAATCATGCGGTACCATTTTCAGGATCGTTTAGTTGCATTCAAGTTTTACAATTTATGCGGTTGGTACGATGGCGATGTTGTTCAACAAACCTTTGTTTGTCATAGAGAAGGTTACAGGTTGGAAGCAACTAGTAGGTGTGGTTGCATGGCAAAAATTCAAGTACACGCTGATTGGTATGGTCGATGGTACATAAAATCAATTGACGATATTCACAATCACACCTTTTTGGATGGGAAGTATCAGGGAATGCTACCTGCACATAGGAAGATGAGCGATTATGACAAATACCAAATGAAAATGATGAGGAAAGTTGGCATTCCTACTGGTGGATTTAAAAATCTTGGATATACAAGAAGAGACATGTACAACGAGCAATTCAAGAACAGGAGAGGAAGATTCAAACGGTGTATGTTCGGTGATTTTGATATTGAAGAGTTTGAAACTATGTGGGATTTGTTGGTTGCAGAGTTTGGGTTGGAAAATAATAAGTGGATTCGTGAGCTGTATGAGAAGCGGAGCAATGGTCAACTGCCCATATCCGTGGTAGATTTTATGCTGGTTTCAGAACAACCTCAAGTGCATTTGAACATTGTTGTCTCGCTGCGAATGTCTTGTGATGGAACGATGGACCAAACGTAA

Protein sequence

>MsaT017446.1

MCLHNRGCNLNAEGSEVEDMDNSSCSESDVCSSDEDVEDMYSSLYGCNFDDETAVDCMADLDRINFKEIGSDEIMRYHFQDRLVAFKFYNLCGWYDGDVVQQTFVCHREGYRLEATSRCGCMAKIQVHADWYGRWYIKSIDDIHNHTFLDGKYQGMLPAHRKMSDYDKYQMKMMRKVGIPTGGFKNLGYTRRDMYNEQFKNRRGRFKRCMFGDFDIEEFETMWDLLVAEFGLENNKWIRELYEKRSNGQLPISVVDFMLVSEQPQVHLNIVVSLRMSCDGTMDQT*