AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0095230


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0095230 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0095230 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0095230 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0095230 MtrunA17_Chr4g0016861 100.000 35 0 0 1 35 1 35 9.96e-19 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0095230 ATCG00600.1 97.222 36 1 0 1 36 1 36 2.23e-18 69.3

Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGATTGAAGTTTCTCTATT+TGG 0.115333 1_2:+79040334 Msa0095230:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 1_2:+79040230 Msa0095230:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 1_2:-79040376 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 1_2:-79040324 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 1_2:+79040370 Msa0095230:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 1_2:+79040346 Msa0095230:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 1_2:+79040366 Msa0095230:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 1_2:-79040316 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 1_2:-79040242 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 1_2:-79040225 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 1_2:+79040246 Msa0095230:five_prime_UTR
ATATCGACGTGGTGATCAGT+TGG 0.572503 1_2:+79040417 Msa0095230:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 1_2:+79040384 Msa0095230:CDS
GCATATTTACAATATCGACG+TGG 0.789819 1_2:+79040406 Msa0095230:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG - chr1_2:79040327-79040346 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG + chr1_2:79040334-79040353 Msa0095230:CDS 25.0%
AATTGGCAATTGACATGATA+AGG - chr1_2:79040228-79040247 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG + chr1_2:79040269-79040288 Msa0095230:intron 30.0%
GGTAATATCTATCCTTCAAT+AGG - chr1_2:79040284-79040303 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG - chr1_2:79040307-79040326 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG - chr1_2:79040308-79040327 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG - chr1_2:79040319-79040338 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG + chr1_2:79040366-79040385 Msa0095230:CDS 30.0%
AATAATCCAGCCAAAGTAAT+AGG - chr1_2:79040379-79040398 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG + chr1_2:79040384-79040403 Msa0095230:CDS 30.0%
TCATGTCAATTGCCAATTCT+TGG + chr1_2:79040230-79040249 Msa0095230:five_prime_UTR 35.0%
GAATCTCAATGACCAAGAAT+TGG - chr1_2:79040245-79040264 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG + chr1_2:79040246-79040265 Msa0095230:five_prime_UTR 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG - chr1_2:79040305-79040324 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG - chr1_2:79040306-79040325 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG + chr1_2:79040346-79040365 Msa0095230:CDS 35.0%
CTAATTCCTATTACTTTGGC+TGG + chr1_2:79040370-79040389 Msa0095230:CDS 35.0%
GCATATTTACAATATCGACG+TGG + chr1_2:79040406-79040425 Msa0095230:CDS 35.0%
ATATCGACGTGGTGATCAGT+TGG + chr1_2:79040417-79040436 Msa0095230:CDS 45.0%
Chromosome Type Strat End Strand Name
chr1_2 gene 79040223 79040444 79040223 ID=Msa0095230;Name=Msa0095230
chr1_2 mRNA 79040223 79040444 79040223 ID=Msa0095230-mRNA-1;Parent=Msa0095230;Name=Msa0095230-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr1_2 exon 79040223 79040267 79040223 ID=Msa0095230-mRNA-1:exon:28087;Parent=Msa0095230-mRNA-1
chr1_2 exon 79040296 79040444 79040296 ID=Msa0095230-mRNA-1:exon:28088;Parent=Msa0095230-mRNA-1
chr1_2 five_prime_UTR 79040223 79040267 79040223 ID=Msa0095230-mRNA-1:five_prime_utr;Parent=Msa0095230-mRNA-1
chr1_2 five_prime_UTR 79040296 79040333 79040296 ID=Msa0095230-mRNA-1:five_prime_utr;Parent=Msa0095230-mRNA-1
chr1_2 CDS 79040334 79040444 79040334 ID=Msa0095230-mRNA-1:cds;Parent=Msa0095230-mRNA-1
Gene Sequence

>Msa0095230

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0095230

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI