AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007955.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007955.01.T01 MTR_2g436020 96.667 60 2 0 1 60 83 142 1.39e-38 124
MsG0280007955.01.T01 MTR_2g436250 96.667 60 2 0 1 60 83 142 1.39e-38 124
MsG0280007955.01.T01 MTR_4g120160 76.667 30 7 0 1 30 81 110 1.30e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007955.01.T01 AT5G49120 46.875 64 28 2 1 60 87 148 2.92e-12 57.8

Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTCTTATCATCATGAAAA+AGG 0.300416 2:+23682093 MsG0280007955.01.T01:CDS
TTAATTAAGCAGGGTAAAAC+TGG 0.323409 2:-23682245 None:intergenic
CAATAAGCAAACCACCGTTT+TGG 0.363553 2:-23682125 None:intergenic
TTAATTAATGTTGTGAGATA+AGG 0.438776 2:+23682260 MsG0280007955.01.T01:three_prime_UTR
TCTCACAACATTAATTAAGC+AGG 0.438844 2:-23682255 None:intergenic
CCCATAAAATAAAAGTAGAA+AGG 0.519497 2:-23682327 None:intergenic
ATTGATACATGAATGAAGAA+AGG 0.524095 2:+23682144 MsG0280007955.01.T01:exon
GGACGTTTCAGCTTCATACA+AGG 0.529104 2:-23682306 None:intergenic
CTCACAACATTAATTAAGCA+GGG 0.566015 2:-23682254 None:intergenic
GGATAGAGCTTTCTGTAGTG+TGG 0.592385 2:+23681972 MsG0280007955.01.T01:CDS
AAAGGAAGAAGAAACCAAAA+CGG 0.628233 2:+23682111 MsG0280007955.01.T01:CDS
TAGATGCAAGCATATTGTGA+TGG 0.653765 2:+23681999 MsG0280007955.01.T01:CDS
GGAAGAAGAAACCAAAACGG+TGG 0.688263 2:+23682114 MsG0280007955.01.T01:CDS
AAGATGAAGAAATTGCAGCA+TGG 0.688850 2:-23682062 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATAAAAAACAAAGATCT+AGG - Chr2:23681872-23681891 None:intergenic 15.0%
!! AATATAAAGTTTCATAACAT+AGG - Chr2:23681824-23681843 None:intergenic 15.0%
!! ATATTGTGAGATAAAAAAAA+TGG + Chr2:23682190-23682209 MsG0280007955.01.T01:three_prime_UTR 15.0%
!! CATAGGTTATAAAATATAGA+AGG - Chr2:23681807-23681826 None:intergenic 20.0%
!! TTAATTAATGTTGTGAGATA+AGG + Chr2:23682260-23682279 MsG0280007955.01.T01:three_prime_UTR 20.0%
!!! TTGTGTTTATTTTTTGTGAA+GGG + Chr2:23681950-23681969 MsG0280007955.01.T01:intron 20.0%
!!! TTTGTGTTTATTTTTTGTGA+AGG + Chr2:23681949-23681968 MsG0280007955.01.T01:intron 20.0%
! ATTGATACATGAATGAAGAA+AGG + Chr2:23682144-23682163 MsG0280007955.01.T01:exon 25.0%
!!! TGTGTTTATTTTTTGTGAAG+GGG + Chr2:23681951-23681970 MsG0280007955.01.T01:intron 25.0%
AAAGGAAGAAGAAACCAAAA+CGG + Chr2:23682111-23682130 MsG0280007955.01.T01:CDS 30.0%
CTCACAACATTAATTAAGCA+GGG - Chr2:23682257-23682276 None:intergenic 30.0%
GCTTCTTATCATCATGAAAA+AGG + Chr2:23682093-23682112 MsG0280007955.01.T01:CDS 30.0%
TCTCACAACATTAATTAAGC+AGG - Chr2:23682258-23682277 None:intergenic 30.0%
TTAATTAAGCAGGGTAAAAC+TGG - Chr2:23682248-23682267 None:intergenic 30.0%
AAGATGAAGAAATTGCAGCA+TGG - Chr2:23682065-23682084 None:intergenic 35.0%
TAGATGCAAGCATATTGTGA+TGG + Chr2:23681999-23682018 MsG0280007955.01.T01:CDS 35.0%
! CAATAAGCAAACCACCGTTT+TGG - Chr2:23682128-23682147 None:intergenic 40.0%
GGAAGAAGAAACCAAAACGG+TGG + Chr2:23682114-23682133 MsG0280007955.01.T01:CDS 45.0%
GGACGTTTCAGCTTCATACA+AGG - Chr2:23682309-23682328 None:intergenic 45.0%
GGATAGAGCTTTCTGTAGTG+TGG + Chr2:23681972-23681991 MsG0280007955.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr2 gene 23681790 23682339 23681790 ID=MsG0280007955.01;Name=MsG0280007955.01
Chr2 mRNA 23681790 23682339 23681790 ID=MsG0280007955.01.T01;Parent=MsG0280007955.01;Name=MsG0280007955.01.T01;_AED=0.43;_eAED=0.43;_QI=0|0|0.5|1|0|0|2|184|64
Chr2 exon 23681790 23681797 23681790 ID=MsG0280007955.01.T01:exon:40483;Parent=MsG0280007955.01.T01
Chr2 exon 23681969 23682339 23681969 ID=MsG0280007955.01.T01:exon:40484;Parent=MsG0280007955.01.T01
Chr2 CDS 23681790 23681797 23681790 ID=MsG0280007955.01.T01:cds;Parent=MsG0280007955.01.T01
Chr2 CDS 23681969 23682155 23681969 ID=MsG0280007955.01.T01:cds;Parent=MsG0280007955.01.T01
Chr2 three_prime_UTR 23682156 23682339 23682156 ID=MsG0280007955.01.T01:three_prime_utr;Parent=MsG0280007955.01.T01
Gene Sequence

>MsG0280007955.01.T01

ATGTACAAAGGGGATAGAGCTTTCTGTAGTGTGGAATGTAGATGCAAGCATATTGTGATGGATGAAGAAGAAAGTAACAATATTCAGAATGAGAACTGTTACCATGCTGCAATTTCTTCATCTTCTTCAGAAGCTTCTTATCATCATGAAAAAGGAAGAAGAAACCAAAACGGTGGTTTGCTTATTGATACATGA

Protein sequence

>MsG0280007955.01.T01

MYKGDRAFCSVECRCKHIVMDEEESNNIQNENCYHAAISSSSSEASYHHEKGRRNQNGGLLIDT*