AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0610360


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0610360 MtrunA17_Chr4g0043181 98.824 85 1 0 1 85 1 85 1.90e-57 171
Msa0610360 MtrunA17_Chr4g0043191 80.899 89 13 1 1 85 1 89 1.86e-36 118
Msa0610360 MtrunA17_Chr8g0376661 76.136 88 17 1 1 84 1 88 9.45e-36 116
Msa0610360 MtrunA17_Chr5g0434291 73.034 89 20 1 1 85 1 89 3.72e-34 112
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0610360 AT1G30260.1 57.447 47 19 1 1 47 1 46 4.53e-14 62.0

Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAACAATTACCGAAGATGAT+AGG 0.349387 4_2:-58062663 Msa0610360:CDS
GTGTTCTGTGAACTTCCTTC+AGG 0.374501 4_2:+58062539 None:intergenic
GTTGATTTCCCTATCATCTT+CGG 0.441737 4_2:+58062654 None:intergenic
AACAATTACCGAAGATGATA+GGG 0.480270 4_2:-58062662 Msa0610360:CDS
AACTTCCTTCAGGAAGTCCC+TGG 0.520126 4_2:+58062549 None:intergenic
CCTGGTGTTAACAGTTGCAT+TGG 0.525174 4_2:+58062567 None:intergenic
AACAGTTGCATTGGTAGAAG+AGG 0.536442 4_2:+58062576 None:intergenic
CCAATGCAACTGTTAACACC+AGG 0.562296 4_2:-58062567 Msa0610360:CDS
TGGCAAATTCTCGCATTGCA+AGG 0.562620 4_2:-58062753 Msa0610360:CDS
CACAGTATGTAAGTGTGATG+AGG 0.628878 4_2:-58062708 Msa0610360:CDS
TAACACCAGGGACTTCCTGA+AGG 0.629339 4_2:-58062554 Msa0610360:CDS
CTCATCACACTTACATACTG+TGG 0.654805 4_2:+58062709 None:intergenic
ATCACACTTACATACTGTGG+TGG 0.669826 4_2:+58062712 None:intergenic
CAATGCAACTGTTAACACCA+GGG 0.715445 4_2:-58062566 Msa0610360:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GCATAGAACAACAAAAATGA+TGG - chr4_2:58062587-58062606 Msa0610360:CDS 30.0%
AAACAATTACCGAAGATGAT+AGG - chr4_2:58062610-58062629 Msa0610360:CDS 30.0%
AACAATTACCGAAGATGATA+GGG - chr4_2:58062611-58062630 Msa0610360:CDS 30.0%
! GATGAAGCTAATGAACTTTT+TGG + chr4_2:58062669-58062688 None:intergenic 30.0%
! GTTGATTTCCCTATCATCTT+CGG + chr4_2:58062622-58062641 None:intergenic 35.0%
! GAAGCTAATGAACTTTTTGG+TGG + chr4_2:58062666-58062685 None:intergenic 35.0%
! TCGCATTGCAAGGTTTTTCA+TGG - chr4_2:58062530-58062549 Msa0610360:CDS 40.0%
! CATTGCAAGGTTTTTCATGG+AGG - chr4_2:58062533-58062552 Msa0610360:CDS 40.0%
ATCACACTTACATACTGTGG+TGG + chr4_2:58062564-58062583 None:intergenic 40.0%
CTCATCACACTTACATACTG+TGG + chr4_2:58062567-58062586 None:intergenic 40.0%
CACAGTATGTAAGTGTGATG+AGG - chr4_2:58062565-58062584 Msa0610360:CDS 40.0%
! AACAGTTGCATTGGTAGAAG+AGG + chr4_2:58062700-58062719 None:intergenic 40.0%
CAATGCAACTGTTAACACCA+GGG - chr4_2:58062707-58062726 Msa0610360:CDS 40.0%
TGGCAAATTCTCGCATTGCA+AGG - chr4_2:58062520-58062539 Msa0610360:CDS 45.0%
! TGCAAGGTTTTTCATGGAGG+TGG - chr4_2:58062536-58062555 Msa0610360:CDS 45.0%
! CCTGGTGTTAACAGTTGCAT+TGG + chr4_2:58062709-58062728 None:intergenic 45.0%
CCAATGCAACTGTTAACACC+AGG - chr4_2:58062706-58062725 Msa0610360:CDS 45.0%
GTGTTCTGTGAACTTCCTTC+AGG + chr4_2:58062737-58062756 None:intergenic 45.0%
TAACACCAGGGACTTCCTGA+AGG - chr4_2:58062719-58062738 Msa0610360:CDS 50.0%
AACTTCCTTCAGGAAGTCCC+TGG + chr4_2:58062727-58062746 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
chr4_2 gene 58062519 58062776 58062519 ID=Msa0610360;Name=Msa0610360
chr4_2 mRNA 58062519 58062776 58062519 ID=Msa0610360-mRNA-1;Parent=Msa0610360;Name=Msa0610360-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0|-1|0|1|-1|1|1|0|85
chr4_2 exon 58062519 58062776 58062519 ID=Msa0610360-mRNA-1:exon:15227;Parent=Msa0610360-mRNA-1
chr4_2 CDS 58062519 58062776 58062519 ID=Msa0610360-mRNA-1:cds;Parent=Msa0610360-mRNA-1
Gene Sequence

>Msa0610360

ATGGCAAATTCTCGCATTGCAAGGTTTTTCATGGAGGTGGCACCACCACAGTATGTAAGTGTGATGAGGCATAGAACAACAAAAATGATGGAAACAATTACCGAAGATGATAGGGAAATCAACTCAAATGATAGTGTAATTTCACCACCAAAAAGTTCATTAGCTTCATCACTTGCTGCCTCTTCTACCAATGCAACTGTTAACACCAGGGACTTCCTGAAGGAAGTTCACAGAACACTCTCAAGTTTGAATCACTGA

Protein sequence

>Msa0610360

MANSRIARFFMEVAPPQYVSVMRHRTTKMMETITEDDREINSNDSVISPPKSSLASSLAASSTNATVNTRDFLKEVHRTLSSLNH*