AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580024340.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024340.01.T01 MTR_5g009290 84.932 73 1 1 1 63 70 142 1.54e-36 119
MsG0580024340.01.T02 MTR_5g009290 98.214 56 1 0 5 60 87 142 9.94e-34 112
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 14 sgRNAs with CRISPR-Local

Find 13 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGGTTCAAGTTGATAGAA+TGG 0.448567 5:+3560263 None:intergenic
TCAAAATTTAAATGCAAAGA+AGG 0.460513 5:-3560348 MsG0580024340.01.T02:CDS
AGAATGGTAACTCGGTCCAT+TGG 0.465675 5:+3560279 None:intergenic
GAATGGTAACTCGGTCCATT+GGG 0.488126 5:+3560280 None:intergenic
TGAGCTTGTGGCACTCCCAA+TGG 0.488217 5:-3560295 MsG0580024340.01.T02:CDS
AATTATTAGGAGAAAGAGAA+AGG 0.495743 5:-3560428 MsG0580024340.01.T02:intron
TCAGAAGCAACATCTTTGAA+TGG 0.548770 5:+3560315 None:intergenic
GAAAAGGAGGAGTTGATGAA+AGG 0.556432 5:-3560483 None:intergenic
AGATGTTGCTTCTGAGCTTG+TGG 0.567179 5:-3560307 MsG0580024340.01.T02:CDS
GATGAATGTTACTAGAGTGA+AGG 0.581123 5:-3560406 MsG0580024340.01.T02:CDS
ATGAAAGGAAGAAGAAGCTG+TGG 0.613856 5:-3560468 MsG0580024340.01.T02:intron
AGTGAAGGTAAAGATGACAA+AGG 0.626326 5:-3560391 MsG0580024340.01.T02:CDS
AAATTTAAATGCAAAGAAGG+AGG 0.657803 5:-3560345 MsG0580024340.01.T02:CDS
AAGTTGATAGAATGGTAACT+CGG 0.691380 5:+3560271 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTATATTGATGAATTATT+AGG - Chr5:3560296-3560315 MsG0580024340.01.T02:CDS 10.0%
!! TCAAAATTTAAATGCAAAGA+AGG - Chr5:3560389-3560408 MsG0580024340.01.T02:CDS 20.0%
! AAATTTAAATGCAAAGAAGG+AGG - Chr5:3560392-3560411 MsG0580024340.01.T02:CDS 25.0%
! AATTATTAGGAGAAAGAGAA+AGG - Chr5:3560309-3560328 MsG0580024340.01.T02:CDS 25.0%
!! AAGTTGATAGAATGGTAACT+CGG + Chr5:3560469-3560488 None:intergenic 30.0%
AGTGAAGGTAAAGATGACAA+AGG - Chr5:3560346-3560365 MsG0580024340.01.T02:CDS 35.0%
GATGAATGTTACTAGAGTGA+AGG - Chr5:3560331-3560350 MsG0580024340.01.T02:CDS 35.0%
TCAGAAGCAACATCTTTGAA+TGG + Chr5:3560425-3560444 None:intergenic 35.0%
ATGAAAGGAAGAAGAAGCTG+TGG - Chr5:3560269-3560288 MsG0580024340.01.T02:CDS 40.0%
AGAATGGTAACTCGGTCCAT+TGG + Chr5:3560461-3560480 None:intergenic 45.0%
GAATGGTAACTCGGTCCATT+GGG + Chr5:3560460-3560479 None:intergenic 45.0%
! AGATGTTGCTTCTGAGCTTG+TGG - Chr5:3560430-3560449 MsG0580024340.01.T02:intron 45.0%
TGAGCTTGTGGCACTCCCAA+TGG - Chr5:3560442-3560461 MsG0580024340.01.T02:intron 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 3560269 3560490 3560269 ID=MsG0580024340.01;Name=MsG0580024340.01
Chr5 mRNA 3560269 3560490 3560269 ID=MsG0580024340.01.T01;Parent=MsG0580024340.01;Name=MsG0580024340.01.T01;_AED=0.40;_eAED=0.40;_QI=0|0|0|1|0|0|2|0|63
Chr5 exon 3560269 3560438 3560269 ID=MsG0580024340.01.T01:exon:19987;Parent=MsG0580024340.01.T01
Chr5 exon 3560469 3560490 3560469 ID=MsG0580024340.01.T01:exon:19986;Parent=MsG0580024340.01.T01
Chr5 CDS 3560469 3560490 3560469 ID=MsG0580024340.01.T01:cds;Parent=MsG0580024340.01.T01
Chr5 CDS 3560269 3560438 3560269 ID=MsG0580024340.01.T01:cds;Parent=MsG0580024340.01.T01
Chr5 mRNA 3560269 3560490 3560269 ID=MsG0580024340.01.T02;Parent=MsG0580024340.01;Name=MsG0580024340.01.T02;_AED=0.40;_eAED=0.41;_QI=0|0|0|1|0|0|2|0|60
Chr5 exon 3560269 3560441 3560269 ID=MsG0580024340.01.T02:exon:19989;Parent=MsG0580024340.01.T02
Chr5 exon 3560481 3560490 3560481 ID=MsG0580024340.01.T02:exon:19988;Parent=MsG0580024340.01.T02
Chr5 CDS 3560481 3560490 3560481 ID=MsG0580024340.01.T02:cds;Parent=MsG0580024340.01.T02
Chr5 CDS 3560269 3560441 3560269 ID=MsG0580024340.01.T02:cds;Parent=MsG0580024340.01.T02
Gene Sequence

>MsG0580024340.01.T01

ATGAAAGGAAGAAGAAGCTGTGAAAGAGAAAGGATGAATGTTACTAGAGTGAAGGTAAAGATGACAAAGGAAGAAGCAGCTAAGTTACTGTCAAAATTTAAATGCAAAGAAGGAGGAGTTCTTCCATTCAAAGATGTTGCTTCTGAGCTTGTGGCACTCCCAATGGACCGAGTTACCATTCTATCAACTTGA

>MsG0580024340.01.T02

ATGAAAGGAAGAGAAAGAGAAAGGATGAATGTTACTAGAGTGAAGGTAAAGATGACAAAGGAAGAAGCAGCTAAGTTACTGTCAAAATTTAAATGCAAAGAAGGAGGAGTTCTTCCATTCAAAGATGTTGCTTCTGAGCTTGTGGCACTCCCAATGGACCGAGTTACCATTCTATCAACTTGA

Protein sequence

>MsG0580024340.01.T01

MKGRRSCERERMNVTRVKVKMTKEEAAKLLSKFKCKEGGVLPFKDVASELVALPMDRVTILST*

>MsG0580024340.01.T02

MKGRERERMNVTRVKVKMTKEEAAKLLSKFKCKEGGVLPFKDVASELVALPMDRVTILST*