AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1394080


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1394080 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1394080 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1394080 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1394080 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
Msa1394080 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 tig0021785:+18584 Msa1394080:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 tig0021785:+18480 Msa1394080:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 tig0021785:-18626 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 tig0021785:-18574 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 tig0021785:+18620 Msa1394080:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 tig0021785:+18596 Msa1394080:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 tig0021785:+18616 Msa1394080:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 tig0021785:-18566 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 tig0021785:-18492 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 tig0021785:-18475 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 tig0021785:+18496 Msa1394080:five_prime_UTR
ATATCGACGTGGTGATCAGT+TGG 0.572503 tig0021785:+18667 Msa1394080:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 tig0021785:+18634 Msa1394080:CDS
GCATATTTACAATATCGACG+TGG 0.789819 tig0021785:+18656 Msa1394080:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG - tig0021785:18577-18596 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG + tig0021785:18584-18603 Msa1394080:CDS 25.0%
AATTGGCAATTGACATGATA+AGG - tig0021785:18478-18497 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG + tig0021785:18519-18538 Msa1394080:intron 30.0%
GGTAATATCTATCCTTCAAT+AGG - tig0021785:18534-18553 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG - tig0021785:18557-18576 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG - tig0021785:18558-18577 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG - tig0021785:18569-18588 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG + tig0021785:18616-18635 Msa1394080:CDS 30.0%
AATAATCCAGCCAAAGTAAT+AGG - tig0021785:18629-18648 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG + tig0021785:18634-18653 Msa1394080:CDS 30.0%
TCATGTCAATTGCCAATTCT+TGG + tig0021785:18480-18499 Msa1394080:five_prime_UTR 35.0%
GAATCTCAATGACCAAGAAT+TGG - tig0021785:18495-18514 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG + tig0021785:18496-18515 Msa1394080:five_prime_UTR 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG - tig0021785:18555-18574 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG - tig0021785:18556-18575 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG + tig0021785:18596-18615 Msa1394080:CDS 35.0%
CTAATTCCTATTACTTTGGC+TGG + tig0021785:18620-18639 Msa1394080:CDS 35.0%
GCATATTTACAATATCGACG+TGG + tig0021785:18656-18675 Msa1394080:CDS 35.0%
ATATCGACGTGGTGATCAGT+TGG + tig0021785:18667-18686 Msa1394080:CDS 45.0%
Chromosome Type Strat End Strand Name
tig0021785 gene 18473 18694 18473 ID=Msa1394080;Name=Msa1394080
tig0021785 mRNA 18473 18694 18473 ID=Msa1394080-mRNA-1;Parent=Msa1394080;Name=Msa1394080-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
tig0021785 exon 18473 18517 18473 ID=Msa1394080-mRNA-1:exon:14259;Parent=Msa1394080-mRNA-1
tig0021785 exon 18546 18694 18546 ID=Msa1394080-mRNA-1:exon:14260;Parent=Msa1394080-mRNA-1
tig0021785 five_prime_UTR 18473 18517 18473 ID=Msa1394080-mRNA-1:five_prime_utr;Parent=Msa1394080-mRNA-1
tig0021785 five_prime_UTR 18546 18583 18546 ID=Msa1394080-mRNA-1:five_prime_utr;Parent=Msa1394080-mRNA-1
tig0021785 CDS 18584 18694 18584 ID=Msa1394080-mRNA-1:cds;Parent=Msa1394080-mRNA-1
Gene Sequence

>Msa1394080

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1394080

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI