AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0650890


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0650890 MtrunA17_Chr4g0043181 98.824 85 1 0 1 85 1 85 1.90e-57 171
Msa0650890 MtrunA17_Chr4g0043191 80.899 89 13 1 1 85 1 89 1.86e-36 118
Msa0650890 MtrunA17_Chr8g0376661 76.136 88 17 1 1 84 1 88 9.45e-36 116
Msa0650890 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
Msa0650890 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_3:-58169259 Msa0650890:CDS
GTGTTCTGTGAACTTCCTTC+AGG 0.374501 4_3:+58169135 None:intergenic
GTTGATTTCCCTATCATCTT+CGG 0.441737 4_3:+58169250 None:intergenic
AACAATTACCGAAGATGATA+GGG 0.480270 4_3:-58169258 Msa0650890:CDS
AACTTCCTTCAGGAAGTCCC+TGG 0.520126 4_3:+58169145 None:intergenic
CCTGGTGTTAACAGTTGCAT+TGG 0.525174 4_3:+58169163 None:intergenic
AACAGTTGCATTGGTAGAAG+AGG 0.536442 4_3:+58169172 None:intergenic
CCAATGCAACTGTTAACACC+AGG 0.562296 4_3:-58169163 Msa0650890:CDS
TGGCAAATTCTCGCATTGCA+AGG 0.562620 4_3:-58169349 Msa0650890:CDS
CACAGTATGTAAGTGTGATG+AGG 0.628878 4_3:-58169304 Msa0650890:CDS
TAACACCAGGGACTTCCTGA+AGG 0.629339 4_3:-58169150 Msa0650890:CDS
CTCATCACACTTACATACTG+TGG 0.654805 4_3:+58169305 None:intergenic
ATCACACTTACATACTGTGG+TGG 0.669826 4_3:+58169308 None:intergenic
CAATGCAACTGTTAACACCA+GGG 0.715445 4_3:-58169162 Msa0650890:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GCATAGAACAACAAAAATGA+TGG - chr4_3:58169183-58169202 Msa0650890:CDS 30.0%
AAACAATTACCGAAGATGAT+AGG - chr4_3:58169206-58169225 Msa0650890:CDS 30.0%
AACAATTACCGAAGATGATA+GGG - chr4_3:58169207-58169226 Msa0650890:CDS 30.0%
! GATGAAGCTAATGAACTTTT+TGG + chr4_3:58169265-58169284 None:intergenic 30.0%
! GTTGATTTCCCTATCATCTT+CGG + chr4_3:58169218-58169237 None:intergenic 35.0%
! GAAGCTAATGAACTTTTTGG+TGG + chr4_3:58169262-58169281 None:intergenic 35.0%
! TCGCATTGCAAGGTTTTTCA+TGG - chr4_3:58169126-58169145 Msa0650890:CDS 40.0%
! CATTGCAAGGTTTTTCATGG+AGG - chr4_3:58169129-58169148 Msa0650890:CDS 40.0%
ATCACACTTACATACTGTGG+TGG + chr4_3:58169160-58169179 None:intergenic 40.0%
CTCATCACACTTACATACTG+TGG + chr4_3:58169163-58169182 None:intergenic 40.0%
CACAGTATGTAAGTGTGATG+AGG - chr4_3:58169161-58169180 Msa0650890:CDS 40.0%
! AACAGTTGCATTGGTAGAAG+AGG + chr4_3:58169296-58169315 None:intergenic 40.0%
CAATGCAACTGTTAACACCA+GGG - chr4_3:58169303-58169322 Msa0650890:CDS 40.0%
TGGCAAATTCTCGCATTGCA+AGG - chr4_3:58169116-58169135 Msa0650890:CDS 45.0%
! TGCAAGGTTTTTCATGGAGG+TGG - chr4_3:58169132-58169151 Msa0650890:CDS 45.0%
! CCTGGTGTTAACAGTTGCAT+TGG + chr4_3:58169305-58169324 None:intergenic 45.0%
CCAATGCAACTGTTAACACC+AGG - chr4_3:58169302-58169321 Msa0650890:CDS 45.0%
GTGTTCTGTGAACTTCCTTC+AGG + chr4_3:58169333-58169352 None:intergenic 45.0%
TAACACCAGGGACTTCCTGA+AGG - chr4_3:58169315-58169334 Msa0650890:CDS 50.0%
AACTTCCTTCAGGAAGTCCC+TGG + chr4_3:58169323-58169342 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
chr4_3 gene 58169115 58169372 58169115 ID=Msa0650890;Name=Msa0650890
chr4_3 mRNA 58169115 58169372 58169115 ID=Msa0650890-mRNA-1;Parent=Msa0650890;Name=Msa0650890-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0|-1|0|1|-1|1|1|0|85
chr4_3 exon 58169115 58169372 58169115 ID=Msa0650890-mRNA-1:exon:15343;Parent=Msa0650890-mRNA-1
chr4_3 CDS 58169115 58169372 58169115 ID=Msa0650890-mRNA-1:cds;Parent=Msa0650890-mRNA-1
Gene Sequence

>Msa0650890

ATGGCAAATTCTCGCATTGCAAGGTTTTTCATGGAGGTGGCACCACCACAGTATGTAAGTGTGATGAGGCATAGAACAACAAAAATGATGGAAACAATTACCGAAGATGATAGGGAAATCAACTCAAATGATAGTGTAATTTCACCACCAAAAAGTTCATTAGCTTCATCACTTGCTGCCTCTTCTACCAATGCAACTGTTAACACCAGGGACTTCCTGAAGGAAGTTCACAGAACACTCTCAAGTTTGAATCACTGA

Protein sequence

>Msa0650890

MANSRIARFFMEVAPPQYVSVMRHRTTKMMETITEDDREINSNDSVISPPKSSLASSLAASSTNATVNTRDFLKEVHRTLSSLNH*