AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene28447

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28447.t1 MTR_8g092580 80.328 122 6 3 1 114 14 125 1.47e-57 174
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 17 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAATATCTTTCTTAACTA+TGG 0.122488 4.4:+8541977 None:intergenic
GCAAAGATACAAGAGATCTT+TGG 0.301924 4.4:-8542020 MS.gene28447:CDS
CTCACCCTTGTATCATTAAT+AGG 0.341960 4.4:+8541888 None:intergenic
CAAAGATACAAGAGATCTTT+GGG 0.370184 4.4:-8542019 MS.gene28447:CDS
TGATGCAGCACAAAAGCTTA+TGG 0.379423 4.4:-8542156 MS.gene28447:CDS
TCAATATCTTTCTTAACTAT+GGG 0.429622 4.4:+8541978 None:intergenic
TTCTCTTGTGAATATTTACA+TGG 0.470533 4.4:-8541919 MS.gene28447:CDS
GCAAGAGGATGCGAAGCAAC+CGG 0.476090 4.4:-8542085 MS.gene28447:CDS
CTACACCTATTAATGATACA+AGG 0.485559 4.4:-8541893 MS.gene28447:CDS
AAGGGCAACAACAACATTAG+AGG 0.505052 4.4:-8542116 MS.gene28447:CDS
ACAAAGTGATGATATTGTAA+TGG 0.520018 4.4:-8542042 MS.gene28447:CDS
GGATCTTAGTGATGAAGAGA+AGG 0.549113 4.4:-8542135 MS.gene28447:CDS
TGTATCATTAATAGGTGTAG+TGG 0.560392 4.4:+8541896 None:intergenic
TTGGCGTAAGATGAAGATTG+TGG 0.565153 4.4:-8542213 None:intergenic
GATCTTAGTGATGAAGAGAA+GGG 0.605452 4.4:-8542134 MS.gene28447:CDS
TACACCTATTAATGATACAA+GGG 0.645512 4.4:-8541892 MS.gene28447:CDS
TTAGAGGCAGAAGAAGCAAG+AGG 0.689009 4.4:-8542100 MS.gene28447:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCAATATCTTTCTTAACTAT+GGG + chr4.4:8542109-8542128 None:intergenic 20.0%
!! TTCAATATCTTTCTTAACTA+TGG + chr4.4:8542110-8542129 None:intergenic 20.0%
! ACAAAGTGATGATATTGTAA+TGG - chr4.4:8542042-8542061 MS.gene28447:CDS 25.0%
! TACACCTATTAATGATACAA+GGG - chr4.4:8542192-8542211 MS.gene28447:CDS 25.0%
! TTCTCTTGTGAATATTTACA+TGG - chr4.4:8542165-8542184 MS.gene28447:CDS 25.0%
CAAAGATACAAGAGATCTTT+GGG - chr4.4:8542065-8542084 MS.gene28447:CDS 30.0%
CTACACCTATTAATGATACA+AGG - chr4.4:8542191-8542210 MS.gene28447:CDS 30.0%
TGTATCATTAATAGGTGTAG+TGG + chr4.4:8542191-8542210 None:intergenic 30.0%
! CTCTTTTGCTTCTTAACTAT+TGG + chr4.4:8542139-8542158 None:intergenic 30.0%
CTCACCCTTGTATCATTAAT+AGG + chr4.4:8542199-8542218 None:intergenic 35.0%
GATCTTAGTGATGAAGAGAA+GGG - chr4.4:8541950-8541969 MS.gene28447:CDS 35.0%
GCAAAGATACAAGAGATCTT+TGG - chr4.4:8542064-8542083 MS.gene28447:CDS 35.0%
!!! GCTTTTTTTCTTCTTCATGC+CGG + chr4.4:8542021-8542040 None:intergenic 35.0%
AAGGGCAACAACAACATTAG+AGG - chr4.4:8541968-8541987 MS.gene28447:CDS 40.0%
GGATCTTAGTGATGAAGAGA+AGG - chr4.4:8541949-8541968 MS.gene28447:CDS 40.0%
TGATGCAGCACAAAAGCTTA+TGG - chr4.4:8541928-8541947 MS.gene28447:CDS 40.0%
TTAGAGGCAGAAGAAGCAAG+AGG - chr4.4:8541984-8542003 MS.gene28447:CDS 45.0%
GCAAGAGGATGCGAAGCAAC+CGG - chr4.4:8541999-8542018 MS.gene28447:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 8541881 8542225 8541881 ID=MS.gene28447
chr4.4 mRNA 8541881 8542225 8541881 ID=MS.gene28447.t1;Parent=MS.gene28447
chr4.4 exon 8541881 8542225 8541881 ID=MS.gene28447.t1.exon1;Parent=MS.gene28447.t1
chr4.4 CDS 8541881 8542225 8541881 ID=cds.MS.gene28447.t1;Parent=MS.gene28447.t1
Gene Sequence

>MS.gene28447

ATGAAGATTGTGGAATATGATCAACACTTGATTAATGAGTATGATGTTGATGCAGCACAAAAGCTTATGGATCTTAGTGATGAAGAGAAGGGCAACAACAACATTAGAGGCAGAAGAAGCAAGAGGATGCGAAGCAACCGGCATGAAGAAGAAAAAAAGCAACAAAGTGATGATATTGTAATGGCAAAGATACAAGAGATCTTTGGGAAAGATGTTGAAGTTTTTCCCATAGTTAAGAAAGATATTGAAGTTTTTCCAATAGTTAAGAAGCAAAAGAGATATCGTTCTCTTGTGAATATTTACATGGCCACTACACCTATTAATGATACAAGGGTGAGTGCATGA
Protein sequence

>MS.gene28447.t1

MKIVEYDQHLINEYDVDAAQKLMDLSDEEKGNNNIRGRRSKRMRSNRHEEEKKQQSDDIVMAKIQEIFGKDVEVFPIVKKDIEVFPIVKKQKRYRSLVNIYMATTPINDTRVSA