AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040841.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 16 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAAGGACCCTTTACGGTTT+CGG 0.307868 7:-83236211 MsG0780040841.01.T01:CDS
CGTTTGCTCTAGCTTGGTTT+TGG 0.320724 7:-83236158 MsG0780040841.01.T01:CDS
AGGCAGGGAAGGACCCTTTA+CGG 0.435749 7:-83236217 MsG0780040841.01.T01:CDS
GGGTTTCGTTTGCTCTAGCT+TGG 0.467816 7:-83236164 MsG0780040841.01.T01:CDS
GAGCAAACGAAACCCTAAAT+CGG 0.481071 7:+83236172 None:intergenic
TCAACCACCGAAACCGTAAA+GGG 0.488164 7:+83236204 None:intergenic
TGTCTATGCTCTCAAGAGGC+AGG 0.510611 7:-83236233 MsG0780040841.01.T01:CDS
ATCAACCACCGAAACCGTAA+AGG 0.525393 7:+83236203 None:intergenic
TTACTTACACTGAGCACGCT+AGG 0.551062 7:-83236282 MsG0780040841.01.T01:CDS
ATGCTCTCAAGAGGCAGGGA+AGG 0.564763 7:-83236228 MsG0780040841.01.T01:CDS
GTCTATGCTCTCAAGAGGCA+GGG 0.585715 7:-83236232 MsG0780040841.01.T01:CDS
GAGAAAGACTGTTACCGCCA+TGG 0.588179 7:-83236260 MsG0780040841.01.T01:CDS
AGGACCCTTTACGGTTTCGG+TGG 0.602372 7:-83236208 MsG0780040841.01.T01:CDS
GAGAGCATAGACAACATCCA+TGG 0.645428 7:+83236243 None:intergenic
ATGTTGTCTATGCTCTCAAG+AGG 0.677658 7:-83236237 MsG0780040841.01.T01:CDS
AGCATAGACAACATCCATGG+CGG 0.735882 7:+83236246 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTGTAAATCGTGTTTATTTT+CGG - Chr7:83236262-83236281 MsG0780040841.01.T01:CDS 25.0%
!!! TGATTTTTGGGTCCGATTTA+GGG - Chr7:83236208-83236227 MsG0780040841.01.T01:CDS 35.0%
!!! TTGATTTTTGGGTCCGATTT+AGG - Chr7:83236207-83236226 MsG0780040841.01.T01:CDS 35.0%
ATGTTGTCTATGCTCTCAAG+AGG - Chr7:83236155-83236174 MsG0780040841.01.T01:CDS 40.0%
GAGCAAACGAAACCCTAAAT+CGG + Chr7:83236223-83236242 None:intergenic 40.0%
!! GGTTTCGGTGGTTGATTTTT+GGG - Chr7:83236196-83236215 MsG0780040841.01.T01:CDS 40.0%
AGCATAGACAACATCCATGG+CGG + Chr7:83236149-83236168 None:intergenic 45.0%
ATCAACCACCGAAACCGTAA+AGG + Chr7:83236192-83236211 None:intergenic 45.0%
TCAACCACCGAAACCGTAAA+GGG + Chr7:83236191-83236210 None:intergenic 45.0%
TTACTTACACTGAGCACGCT+AGG - Chr7:83236110-83236129 MsG0780040841.01.T01:CDS 45.0%
! GAGAGCATAGACAACATCCA+TGG + Chr7:83236152-83236171 None:intergenic 45.0%
!! CGGTTTCGGTGGTTGATTTT+TGG - Chr7:83236195-83236214 MsG0780040841.01.T01:CDS 45.0%
!! CGTTTGCTCTAGCTTGGTTT+TGG - Chr7:83236234-83236253 MsG0780040841.01.T01:CDS 45.0%
GAGAAAGACTGTTACCGCCA+TGG - Chr7:83236132-83236151 MsG0780040841.01.T01:CDS 50.0%
GGAAGGACCCTTTACGGTTT+CGG - Chr7:83236181-83236200 MsG0780040841.01.T01:CDS 50.0%
GGGTTTCGTTTGCTCTAGCT+TGG - Chr7:83236228-83236247 MsG0780040841.01.T01:CDS 50.0%
GTCTATGCTCTCAAGAGGCA+GGG - Chr7:83236160-83236179 MsG0780040841.01.T01:CDS 50.0%
TGTCTATGCTCTCAAGAGGC+AGG - Chr7:83236159-83236178 MsG0780040841.01.T01:CDS 50.0%
AGGACCCTTTACGGTTTCGG+TGG - Chr7:83236184-83236203 MsG0780040841.01.T01:CDS 55.0%
AGGCAGGGAAGGACCCTTTA+CGG - Chr7:83236175-83236194 MsG0780040841.01.T01:CDS 55.0%
ATGCTCTCAAGAGGCAGGGA+AGG - Chr7:83236164-83236183 MsG0780040841.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 83236104 83236310 83236104 ID=MsG0780040841.01;Name=MsG0780040841.01
Chr7 mRNA 83236104 83236310 83236104 ID=MsG0780040841.01.T01;Parent=MsG0780040841.01;Name=MsG0780040841.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|68
Chr7 exon 83236104 83236310 83236104 ID=MsG0780040841.01.T01:exon:3037;Parent=MsG0780040841.01.T01
Chr7 CDS 83236104 83236310 83236104 ID=MsG0780040841.01.T01:cds;Parent=MsG0780040841.01.T01
Chr7 mRNA 83236204 83236263 83236204 ID=MsG0780040841.01.T02;Parent=MsG0780040841.01;Name=MsG0780040841.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|19
Chr7 exon 83236204 83236263 83236204 ID=MsG0780040841.01.T02:exon:3038;Parent=MsG0780040841.01.T02
Chr7 CDS 83236204 83236263 83236204 ID=MsG0780040841.01.T02:cds;Parent=MsG0780040841.01.T02
Gene Sequence

>MsG0780040841.01.T02

ATGGATGTTGTCTATGCTCTCAAGAGGCAGGGAAGGACCCTTTACGGTTTCGGTGGTTGA

>MsG0780040841.01.T01

ATGCTGTTACTTACACTGAGCACGCTAGGAGAAAGACTGTTACCGCCATGGATGTTGTCTATGCTCTCAAGAGGCAGGGAAGGACCCTTTACGGTTTCGGTGGTTGATTTTTGGGTCCGATTTAGGGTTTCGTTTGCTCTAGCTTGGTTTTGGTTTAGCTGTAAATCGTGTTTATTTTCGGTCTTTTATTATTACGTTCTTGTTTAA

Protein sequence

>MsG0780040841.01.T02

MDVVYALKRQGRTLYGFGG*

>MsG0780040841.01.T01

MLLLTLSTLGERLLPPWMLSMLSRGREGPFTVSVVDFWVRFRVSFALAWFWFSCKSCLFSVFYYYVLV*