AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0764320


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0764320 MtrunA17_Chr5g0446171 52.252 111 52 1 1 110 1 111 2.39e-30 109
Msa0764320 MtrunA17_Chr5g0446231 55.446 101 40 1 22 117 1 101 3.39e-25 100
Msa0764320 MtrunA17_Chr5g0413371 53.846 104 35 2 17 115 1 96 8.78e-23 93.2
Msa0764320 MtrunA17_Chr5g0446191 54.167 96 39 1 27 117 21 116 2.14e-22 92.0
Msa0764320 MtrunA17_Chr5g0445861 37.795 127 54 3 1 104 1 125 2.85e-14 68.6
Msa0764320 MtrunA17_Chr5g0445771 35.556 135 67 3 3 117 1 135 3.27e-14 68.6
Msa0764320 MtrunA17_Chr5g0445881 34.862 109 59 2 1 104 1 102 1.06e-12 64.3
Msa0764320 MtrunA17_Chr5g0445831 35.537 121 65 3 1 115 1 114 1.34e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 18 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATACATATTGAGGAAGATT+TGG 0.271417 5_2:-24171323 Msa0764320:CDS
TTGATGGAAGTTAAGAAAAC+TGG 0.301409 5_2:-24171241 Msa0764320:CDS
CTTGGCAAACATGAACATTC+AGG 0.332697 5_2:-24171485 Msa0764320:CDS
AAACATGAACATTCAGGGCT+TGG 0.393321 5_2:-24171479 Msa0764320:CDS
CAAGACCCAGGTTCGGCATT+GGG 0.396177 5_2:+24171526 None:intergenic
ATCGAACAGAACAGTTTGAT+AGG 0.397165 5_2:-24171435 Msa0764320:CDS
TTTCAACCCAATGCCGAACC+TGG 0.427131 5_2:-24171532 Msa0764320:CDS
AAGGATGCAGCAGAAGTGTC+AGG 0.476417 5_2:-24171136 Msa0764320:CDS
GTAATATTGAGAGACTAGTT+AGG 0.492814 5_2:-24171345 Msa0764320:CDS
ACAAGACCCAGGTTCGGCAT+TGG 0.505024 5_2:+24171525 None:intergenic
ATTTGAACAAGACCCAGGTT+CGG 0.511073 5_2:+24171519 None:intergenic
TTGGCAAACATGAACATTCA+GGG 0.527661 5_2:-24171484 Msa0764320:CDS
TCGAACAGAACAGTTTGATA+GGG 0.528018 5_2:-24171434 Msa0764320:CDS
TTCAAATGATGAAATGAACT+TGG 0.534602 5_2:-24171503 Msa0764320:CDS
ACTAGTTAGGATACATATTG+AGG 0.540629 5_2:-24171332 Msa0764320:CDS
TCATCATTTGAACAAGACCC+AGG 0.561697 5_2:+24171514 None:intergenic
TTCAACCCAATGCCGAACCT+GGG 0.592352 5_2:-24171531 Msa0764320:CDS
AGAGATGTAAAAGAGCAGAG+AGG 0.730028 5_2:-24171279 Msa0764320:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTCAAATGATGAAATGAACT+TGG - chr5_2:24171149-24171168 Msa0764320:CDS 25.0%
! GAATTACGAAAAATTGTTGA+TGG - chr5_2:24171395-24171414 Msa0764320:CDS 25.0%
! GTAATATTGAGAGACTAGTT+AGG - chr5_2:24171307-24171326 Msa0764320:CDS 30.0%
ACTAGTTAGGATACATATTG+AGG - chr5_2:24171320-24171339 Msa0764320:CDS 30.0%
GATACATATTGAGGAAGATT+TGG - chr5_2:24171329-24171348 Msa0764320:CDS 30.0%
TTGATGGAAGTTAAGAAAAC+TGG - chr5_2:24171411-24171430 Msa0764320:CDS 30.0%
GAGCTGAAAAAGAAAGAAAA+CGG - chr5_2:24171444-24171463 Msa0764320:CDS 30.0%
AGCTGAAAAAGAAAGAAAAC+GGG - chr5_2:24171445-24171464 Msa0764320:CDS 30.0%
TTGGCAAACATGAACATTCA+GGG - chr5_2:24171168-24171187 Msa0764320:CDS 35.0%
ATCGAACAGAACAGTTTGAT+AGG - chr5_2:24171217-24171236 Msa0764320:CDS 35.0%
TCGAACAGAACAGTTTGATA+GGG - chr5_2:24171218-24171237 Msa0764320:CDS 35.0%
ATTTGAACAAGACCCAGGTT+CGG + chr5_2:24171136-24171155 None:intergenic 40.0%
TCATCATTTGAACAAGACCC+AGG + chr5_2:24171141-24171160 None:intergenic 40.0%
CTTGGCAAACATGAACATTC+AGG - chr5_2:24171167-24171186 Msa0764320:CDS 40.0%
AAACATGAACATTCAGGGCT+TGG - chr5_2:24171173-24171192 Msa0764320:CDS 40.0%
AGAGATGTAAAAGAGCAGAG+AGG - chr5_2:24171373-24171392 Msa0764320:CDS 40.0%
AAGATGAACCCCCCAACAAA+AGG - chr5_2:24171490-24171509 Msa0764320:CDS 45.0%
! ATCCTTGCTCCTTTTGTTGG+GGG + chr5_2:24171502-24171521 None:intergenic 45.0%
! CATCCTTGCTCCTTTTGTTG+GGG + chr5_2:24171503-24171522 None:intergenic 45.0%
! GCATCCTTGCTCCTTTTGTT+GGG + chr5_2:24171504-24171523 None:intergenic 45.0%
! TGCATCCTTGCTCCTTTTGT+TGG + chr5_2:24171505-24171524 None:intergenic 45.0%
TTTCAACCCAATGCCGAACC+TGG - chr5_2:24171120-24171139 Msa0764320:CDS 50.0%
TTCAACCCAATGCCGAACCT+GGG - chr5_2:24171121-24171140 Msa0764320:CDS 50.0%
TTGGGGGGTTCATCTTCATC+AGG + chr5_2:24171486-24171505 None:intergenic 50.0%
! TCCTTGCTCCTTTTGTTGGG+GGG + chr5_2:24171501-24171520 None:intergenic 50.0%
!! AAGGATGCAGCAGAAGTGTC+AGG - chr5_2:24171516-24171535 Msa0764320:CDS 50.0%
CAAGACCCAGGTTCGGCATT+GGG + chr5_2:24171129-24171148 None:intergenic 55.0%
ACAAGACCCAGGTTCGGCAT+TGG + chr5_2:24171130-24171149 None:intergenic 55.0%
ACCCCCCAACAAAAGGAGCA+AGG - chr5_2:24171497-24171516 Msa0764320:CDS 55.0%
Chromosome Type Strat End Strand Name
chr5_2 gene 24171114 24171560 24171114 ID=Msa0764320;Name=Msa0764320
chr5_2 mRNA 24171114 24171560 24171114 ID=Msa0764320-mRNA-1;Parent=Msa0764320;Name=Msa0764320-mRNA-1;_AED=0.70;_eAED=0.70;_QI=0|-1|0|1|-1|1|1|0|148
chr5_2 exon 24171114 24171560 24171114 ID=Msa0764320-mRNA-1:exon:9884;Parent=Msa0764320-mRNA-1
chr5_2 CDS 24171114 24171560 24171114 ID=Msa0764320-mRNA-1:cds;Parent=Msa0764320-mRNA-1
Gene Sequence

>Msa0764320

ATGGAATTTCAACCCAATGCCGAACCTGGGTCTTGTTCAAATGATGAAATGAACTTGGCAAACATGAACATTCAGGGCTTGGTTTCATTTATGCGCACAGCTTATCGAACAGAACAGTTTGATAGGGTTGAAGAAATTTTAGTGAGTAGATATAACAAAATGAAAATAGAGATTCAACTTCTTCAAGAGAAGTGTAATATTGAGAGACTAGTTAGGATACATATTGAGGAAGATTTGGAGAAGATAAAGAAAACATGTCAGAGATGTAAAAGAGCAGAGAGGAATTACGAAAAATTGTTGATGGAAGTTAAGAAAACTGGTTTAATTGATGAGCTGAAAAAGAAAGAAAACGGGAATGACACTGTTGAGCCTGATGAAGATGAACCCCCCAACAAAAGGAGCAAGGATGCAGCAGAAGTGTCAGGCAAGTTCATCTACTTCATTTGA

Protein sequence

>Msa0764320

MEFQPNAEPGSCSNDEMNLANMNIQGLVSFMRTAYRTEQFDRVEEILVSRYNKMKIEIQLLQEKCNIERLVRIHIEEDLEKIKKTCQRCKRAERNYEKLLMEVKKTGLIDELKKKENGNDTVEPDEDEPPNKRSKDAAEVSGKFIYFI*