AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0924830


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0924830 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0924830 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0924830 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0924830 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
Msa0924830 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_2:-67448907 Msa0924830:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 6_2:-67449011 Msa0924830:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 6_2:+67448865 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 6_2:+67448917 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 6_2:-67448871 Msa0924830:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 6_2:-67448895 Msa0924830:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 6_2:-67448875 Msa0924830:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 6_2:+67448925 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 6_2:+67448999 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 6_2:+67449016 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 6_2:-67448995 Msa0924830:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 6_2:-67448824 Msa0924830:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 6_2:-67448857 Msa0924830:CDS
GCATATTTACAATATCGACG+TGG 0.789819 6_2:-67448835 Msa0924830:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr6_2:67448923-67448942 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr6_2:67448930-67448949 Msa0924830:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr6_2:67448824-67448843 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr6_2:67448865-67448884 Msa0924830:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr6_2:67448880-67448899 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr6_2:67448903-67448922 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr6_2:67448904-67448923 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr6_2:67448915-67448934 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr6_2:67448962-67448981 Msa0924830:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr6_2:67448975-67448994 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr6_2:67448980-67448999 Msa0924830:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr6_2:67448826-67448845 Msa0924830:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr6_2:67448841-67448860 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr6_2:67448842-67448861 Msa0924830:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr6_2:67448901-67448920 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr6_2:67448902-67448921 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr6_2:67448942-67448961 Msa0924830:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr6_2:67448966-67448985 Msa0924830:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr6_2:67449002-67449021 Msa0924830:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr6_2:67449013-67449032 Msa0924830:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr6_2 gene 67448819 67449040 67448819 ID=Msa0924830;Name=Msa0924830
chr6_2 mRNA 67448819 67449040 67448819 ID=Msa0924830-mRNA-1;Parent=Msa0924830;Name=Msa0924830-mRNA-1;_AED=0.42;_eAED=0.67;_QI=83|0|0|1|0|0|2|0|37
chr6_2 exon 67448996 67449040 67448996 ID=Msa0924830-mRNA-1:exon:10686;Parent=Msa0924830-mRNA-1
chr6_2 exon 67448819 67448967 67448819 ID=Msa0924830-mRNA-1:exon:10685;Parent=Msa0924830-mRNA-1
chr6_2 five_prime_UTR 67448996 67449040 67448996 ID=Msa0924830-mRNA-1:five_prime_utr;Parent=Msa0924830-mRNA-1
chr6_2 five_prime_UTR 67448930 67448967 67448930 ID=Msa0924830-mRNA-1:five_prime_utr;Parent=Msa0924830-mRNA-1
chr6_2 CDS 67448819 67448929 67448819 ID=Msa0924830-mRNA-1:cds;Parent=Msa0924830-mRNA-1
Gene Sequence

>Msa0924830

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0924830

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI