AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1086350


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1086350 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1086350 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086350 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086350 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
Msa1086350 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:-87344614 Msa1086350:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 7_2:-87344718 Msa1086350:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 7_2:+87344572 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 7_2:+87344624 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 7_2:-87344578 Msa1086350:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 7_2:-87344602 Msa1086350:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 7_2:-87344582 Msa1086350:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 7_2:+87344632 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 7_2:+87344706 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 7_2:+87344723 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 7_2:-87344702 Msa1086350:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 7_2:-87344531 Msa1086350:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 7_2:-87344564 Msa1086350:CDS
GCATATTTACAATATCGACG+TGG 0.789819 7_2:-87344542 Msa1086350:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr7_2:87344630-87344649 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr7_2:87344637-87344656 Msa1086350:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr7_2:87344531-87344550 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr7_2:87344572-87344591 Msa1086350:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr7_2:87344587-87344606 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr7_2:87344610-87344629 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr7_2:87344611-87344630 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr7_2:87344622-87344641 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr7_2:87344669-87344688 Msa1086350:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr7_2:87344682-87344701 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr7_2:87344687-87344706 Msa1086350:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr7_2:87344533-87344552 Msa1086350:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr7_2:87344548-87344567 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr7_2:87344549-87344568 Msa1086350:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr7_2:87344608-87344627 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr7_2:87344609-87344628 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr7_2:87344649-87344668 Msa1086350:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr7_2:87344673-87344692 Msa1086350:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr7_2:87344709-87344728 Msa1086350:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr7_2:87344720-87344739 Msa1086350:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr7_2 gene 87344526 87344747 87344526 ID=Msa1086350;Name=Msa1086350
chr7_2 mRNA 87344526 87344747 87344526 ID=Msa1086350-mRNA-1;Parent=Msa1086350;Name=Msa1086350-mRNA-1;_AED=0.40;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr7_2 exon 87344703 87344747 87344703 ID=Msa1086350-mRNA-1:exon:23786;Parent=Msa1086350-mRNA-1
chr7_2 exon 87344526 87344674 87344526 ID=Msa1086350-mRNA-1:exon:23785;Parent=Msa1086350-mRNA-1
chr7_2 five_prime_UTR 87344703 87344747 87344703 ID=Msa1086350-mRNA-1:five_prime_utr;Parent=Msa1086350-mRNA-1
chr7_2 five_prime_UTR 87344637 87344674 87344637 ID=Msa1086350-mRNA-1:five_prime_utr;Parent=Msa1086350-mRNA-1
chr7_2 CDS 87344526 87344636 87344526 ID=Msa1086350-mRNA-1:cds;Parent=Msa1086350-mRNA-1
Gene Sequence

>Msa1086350

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1086350

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI