AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1086510


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1086510 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1086510 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086510 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086510 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
Msa1086510 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 7_2:+87424703 Msa1086510:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 7_2:+87424599 Msa1086510:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 7_2:-87424745 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 7_2:-87424693 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 7_2:+87424739 Msa1086510:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 7_2:+87424715 Msa1086510:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 7_2:+87424735 Msa1086510:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 7_2:-87424685 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 7_2:-87424611 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 7_2:-87424594 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 7_2:+87424615 Msa1086510:five_prime_UTR
ATATCGACGTGGTGATCAGT+TGG 0.572503 7_2:+87424786 Msa1086510:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 7_2:+87424753 Msa1086510:CDS
GCATATTTACAATATCGACG+TGG 0.789819 7_2:+87424775 Msa1086510:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG - chr7_2:87424696-87424715 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG + chr7_2:87424703-87424722 Msa1086510:CDS 25.0%
AATTGGCAATTGACATGATA+AGG - chr7_2:87424597-87424616 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG + chr7_2:87424638-87424657 Msa1086510:intron 30.0%
GGTAATATCTATCCTTCAAT+AGG - chr7_2:87424653-87424672 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG - chr7_2:87424676-87424695 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG - chr7_2:87424677-87424696 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG - chr7_2:87424688-87424707 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG + chr7_2:87424735-87424754 Msa1086510:CDS 30.0%
AATAATCCAGCCAAAGTAAT+AGG - chr7_2:87424748-87424767 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG + chr7_2:87424753-87424772 Msa1086510:CDS 30.0%
TCATGTCAATTGCCAATTCT+TGG + chr7_2:87424599-87424618 Msa1086510:five_prime_UTR 35.0%
GAATCTCAATGACCAAGAAT+TGG - chr7_2:87424614-87424633 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG + chr7_2:87424615-87424634 Msa1086510:five_prime_UTR 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG - chr7_2:87424674-87424693 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG - chr7_2:87424675-87424694 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG + chr7_2:87424715-87424734 Msa1086510:CDS 35.0%
CTAATTCCTATTACTTTGGC+TGG + chr7_2:87424739-87424758 Msa1086510:CDS 35.0%
GCATATTTACAATATCGACG+TGG + chr7_2:87424775-87424794 Msa1086510:CDS 35.0%
ATATCGACGTGGTGATCAGT+TGG + chr7_2:87424786-87424805 Msa1086510:CDS 45.0%
Chromosome Type Strat End Strand Name
chr7_2 gene 87424592 87424813 87424592 ID=Msa1086510;Name=Msa1086510
chr7_2 mRNA 87424592 87424813 87424592 ID=Msa1086510-mRNA-1;Parent=Msa1086510;Name=Msa1086510-mRNA-1;_AED=0.40;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr7_2 exon 87424592 87424636 87424592 ID=Msa1086510-mRNA-1:exon:23847;Parent=Msa1086510-mRNA-1
chr7_2 exon 87424665 87424813 87424665 ID=Msa1086510-mRNA-1:exon:23848;Parent=Msa1086510-mRNA-1
chr7_2 five_prime_UTR 87424592 87424636 87424592 ID=Msa1086510-mRNA-1:five_prime_utr;Parent=Msa1086510-mRNA-1
chr7_2 five_prime_UTR 87424665 87424702 87424665 ID=Msa1086510-mRNA-1:five_prime_utr;Parent=Msa1086510-mRNA-1
chr7_2 CDS 87424703 87424813 87424703 ID=Msa1086510-mRNA-1:cds;Parent=Msa1086510-mRNA-1
Gene Sequence

>Msa1086510

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1086510

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI