AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0983680


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0983680 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0983680 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0983680 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0983680 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
Msa0983680 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 6_4:-26789140 Msa0983680:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 6_4:-26789244 Msa0983680:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 6_4:+26789098 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 6_4:+26789150 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 6_4:-26789104 Msa0983680:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 6_4:-26789128 Msa0983680:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 6_4:-26789108 Msa0983680:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 6_4:+26789158 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 6_4:+26789232 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 6_4:+26789249 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 6_4:-26789228 Msa0983680:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 6_4:-26789057 Msa0983680:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 6_4:-26789090 Msa0983680:CDS
GCATATTTACAATATCGACG+TGG 0.789819 6_4:-26789068 Msa0983680:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr6_4:26789156-26789175 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr6_4:26789163-26789182 Msa0983680:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr6_4:26789057-26789076 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr6_4:26789098-26789117 Msa0983680:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr6_4:26789113-26789132 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr6_4:26789136-26789155 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr6_4:26789137-26789156 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr6_4:26789148-26789167 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr6_4:26789195-26789214 Msa0983680:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr6_4:26789208-26789227 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr6_4:26789213-26789232 Msa0983680:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr6_4:26789059-26789078 Msa0983680:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr6_4:26789074-26789093 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr6_4:26789075-26789094 Msa0983680:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr6_4:26789134-26789153 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr6_4:26789135-26789154 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr6_4:26789175-26789194 Msa0983680:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr6_4:26789199-26789218 Msa0983680:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr6_4:26789235-26789254 Msa0983680:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr6_4:26789246-26789265 Msa0983680:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr6_4 gene 26789052 26789273 26789052 ID=Msa0983680;Name=Msa0983680
chr6_4 mRNA 26789052 26789273 26789052 ID=Msa0983680-mRNA-1;Parent=Msa0983680;Name=Msa0983680-mRNA-1;_AED=0.42;_eAED=0.67;_QI=83|0|0|1|0|0|2|0|37
chr6_4 exon 26789229 26789273 26789229 ID=Msa0983680-mRNA-1:exon:7582;Parent=Msa0983680-mRNA-1
chr6_4 exon 26789052 26789200 26789052 ID=Msa0983680-mRNA-1:exon:7581;Parent=Msa0983680-mRNA-1
chr6_4 five_prime_UTR 26789229 26789273 26789229 ID=Msa0983680-mRNA-1:five_prime_utr;Parent=Msa0983680-mRNA-1
chr6_4 five_prime_UTR 26789163 26789200 26789163 ID=Msa0983680-mRNA-1:five_prime_utr;Parent=Msa0983680-mRNA-1
chr6_4 CDS 26789052 26789162 26789052 ID=Msa0983680-mRNA-1:cds;Parent=Msa0983680-mRNA-1
Gene Sequence

>Msa0983680

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0983680

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI