AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017739.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017739.01.T01 MTR_3g111360 85.057 87 7 1 4 90 1 81 5.56e-47 145
MsG0380017739.01.T01 MTR_5g067050 65.714 70 20 3 22 89 13 80 1.52e-23 85.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 18 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGGTTGCTTTCATGCTT+TGG 0.283837 3:-100194070 MsG0380017739.01.T01:CDS
TTAGCTAGCAATGGAAAGTT+TGG 0.296785 3:-100194134 None:intergenic
GAGGGTTGCTTTCATGCTTT+GGG 0.333399 3:-100194069 MsG0380017739.01.T01:CDS
TTGTTTGTTCTCCTCTTCCA+TGG 0.436490 3:+100194028 None:intergenic
GAGGACGACGAAGAATCTTT+AGG 0.441691 3:-100193929 MsG0380017739.01.T01:CDS
TCTCCTATAAGAAGCAAAAC+AGG 0.462208 3:-100194097 MsG0380017739.01.T01:CDS
AACACTTATCGAACCGTTGG+TGG 0.490114 3:-100194007 MsG0380017739.01.T01:CDS
AGAAGCAAAACAGGTGGAGG+AGG 0.521376 3:-100194088 MsG0380017739.01.T01:CDS
TGATGATGGTAATTTGGAGG+AGG 0.522189 3:-100193948 MsG0380017739.01.T01:CDS
AATTGAAGCTTCCATGGAAG+AGG 0.536567 3:-100194039 MsG0380017739.01.T01:CDS
AACAACACTTATCGAACCGT+TGG 0.558698 3:-100194010 MsG0380017739.01.T01:CDS
GTCTCAAATTGAAGCTTCCA+TGG 0.569556 3:-100194045 MsG0380017739.01.T01:CDS
ATAAGAAGCAAAACAGGTGG+AGG 0.576069 3:-100194091 MsG0380017739.01.T01:CDS
GACGAAGAATCTTTAGGTCG+CGG 0.579606 3:-100193923 MsG0380017739.01.T01:CDS
ATCATACCTAAAACCACCAA+CGG 0.621720 3:+100193994 None:intergenic
TTGCTTCTTATAGGAGACGA+TGG 0.630393 3:+100194103 None:intergenic
GAAGCAAAACAGGTGGAGGA+GGG 0.645020 3:-100194087 MsG0380017739.01.T01:CDS
CCTATAAGAAGCAAAACAGG+TGG 0.657762 3:-100194094 MsG0380017739.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATTTTGATGATGGTAATT+TGG - Chr3:100194044-100194063 MsG0380017739.01.T01:CDS 20.0%
!! AAATTTTGAGCATAGCTTAA+AGG + Chr3:100194030-100194049 None:intergenic 25.0%
!!! TATGCTCAAAATTTTGATGA+TGG - Chr3:100194036-100194055 MsG0380017739.01.T01:CDS 25.0%
!!! TTTTGATGATGGTAATTTGG+AGG - Chr3:100194047-100194066 MsG0380017739.01.T01:CDS 30.0%
ATCATACCTAAAACCACCAA+CGG + Chr3:100194007-100194026 None:intergenic 35.0%
TCTCCTATAAGAAGCAAAAC+AGG - Chr3:100193901-100193920 MsG0380017739.01.T01:CDS 35.0%
AACAACACTTATCGAACCGT+TGG - Chr3:100193988-100194007 MsG0380017739.01.T01:CDS 40.0%
AATTGAAGCTTCCATGGAAG+AGG - Chr3:100193959-100193978 MsG0380017739.01.T01:CDS 40.0%
ATAAGAAGCAAAACAGGTGG+AGG - Chr3:100193907-100193926 MsG0380017739.01.T01:CDS 40.0%
CCTATAAGAAGCAAAACAGG+TGG - Chr3:100193904-100193923 MsG0380017739.01.T01:CDS 40.0%
GTCTCAAATTGAAGCTTCCA+TGG - Chr3:100193953-100193972 MsG0380017739.01.T01:CDS 40.0%
TTGCTTCTTATAGGAGACGA+TGG + Chr3:100193898-100193917 None:intergenic 40.0%
TTGTTTGTTCTCCTCTTCCA+TGG + Chr3:100193973-100193992 None:intergenic 40.0%
! CCACCTGTTTTGCTTCTTAT+AGG + Chr3:100193907-100193926 None:intergenic 40.0%
!! TGATGATGGTAATTTGGAGG+AGG - Chr3:100194050-100194069 MsG0380017739.01.T01:CDS 40.0%
!!! TGCTTGAGTGTTTTAGCTGA+AGG + Chr3:100194123-100194142 None:intergenic 40.0%
AACACTTATCGAACCGTTGG+TGG - Chr3:100193991-100194010 MsG0380017739.01.T01:CDS 45.0%
GACGAAGAATCTTTAGGTCG+CGG - Chr3:100194075-100194094 MsG0380017739.01.T01:CDS 45.0%
GAGGACGACGAAGAATCTTT+AGG - Chr3:100194069-100194088 MsG0380017739.01.T01:CDS 45.0%
! GAGGGTTGCTTTCATGCTTT+GGG - Chr3:100193929-100193948 MsG0380017739.01.T01:CDS 45.0%
!!! ATCGAACCGTTGGTGGTTTT+AGG - Chr3:100193998-100194017 MsG0380017739.01.T01:CDS 45.0%
AGAAGCAAAACAGGTGGAGG+AGG - Chr3:100193910-100193929 MsG0380017739.01.T01:CDS 50.0%
GAAGCAAAACAGGTGGAGGA+GGG - Chr3:100193911-100193930 MsG0380017739.01.T01:CDS 50.0%
! GGAGGGTTGCTTTCATGCTT+TGG - Chr3:100193928-100193947 MsG0380017739.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 100193874 100194146 100193874 ID=MsG0380017739.01;Name=MsG0380017739.01
Chr3 mRNA 100193874 100194146 100193874 ID=MsG0380017739.01.T01;Parent=MsG0380017739.01;Name=MsG0380017739.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|90
Chr3 exon 100193874 100194146 100193874 ID=MsG0380017739.01.T01:exon:17936;Parent=MsG0380017739.01.T01
Chr3 CDS 100193874 100194146 100193874 ID=MsG0380017739.01.T01:cds;Parent=MsG0380017739.01.T01
Gene Sequence

>MsG0380017739.01.T01

ATGGAAAGTTTGGAAACAAGTCCATCGTCTCCTATAAGAAGCAAAACAGGTGGAGGAGGGTTGCTTTCATGCTTTGGGCGTCTCAAATTGAAGCTTCCATGGAAGAGGAGAACAAACAACACTTATCGAACCGTTGGTGGTTTTAGGTATGATCCTTTAAGCTATGCTCAAAATTTTGATGATGGTAATTTGGAGGAGGACGACGAAGAATCTTTAGGTCGCGGTTTCTCTGCTAGATATGCTGCACCTTCAGCTAAAACACTCAAGCAATGA

Protein sequence

>MsG0380017739.01.T01

MESLETSPSSPIRSKTGGGGLLSCFGRLKLKLPWKRRTNNTYRTVGGFRYDPLSYAQNFDDGNLEEDDEESLGRGFSARYAAPSAKTLKQ*