AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene053298


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 13 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATTGAGTACTACTCTTTA+TGG 0.120660 1.4:+2155828 None:intergenic
TATTGAGTACTACTCTTTAT+GGG 0.330343 1.4:+2155829 None:intergenic
CAAGACACAGACACACCTTT+TGG 0.331421 1.4:+2155883 None:intergenic
GAGATTCAACTTGTTCCAAA+AGG 0.436800 1.4:-2155898 MS.gene053298:CDS
TCGTAAGATTGTTGTGAAGA+TGG 0.478593 1.4:-2156046 MS.gene053298:CDS
CTTGTAGAAGCAGCAGAGCT+AGG 0.495428 1.4:-2155864 MS.gene053298:CDS
GGTTCTATGAAGAAAGAAGA+AGG 0.541223 1.4:-2155979 MS.gene053298:CDS
ATCAGAAGTAGAAGCATGCA+TGG 0.580042 1.4:-2155944 MS.gene053298:CDS
TCACAACAACAAGAAGAAGA+AGG 0.587622 1.4:-2156000 MS.gene053298:CDS
ATGCATGGTTAGAAAAGAAG+AGG 0.601267 1.4:-2155929 MS.gene053298:CDS
TGCATGGTTAGAAAAGAAGA+GGG 0.637344 1.4:-2155928 MS.gene053298:CDS
ATCTTCACAACAATCTTACG+AGG 0.649549 1.4:+2156048 None:intergenic
ATGGTTAGAAAAGAAGAGGG+AGG 0.656282 1.4:-2155925 MS.gene053298:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAAAAAACAAAGGAAATTT+GGG - chr1.4:2155842-2155861 MS.gene053298:CDS 20.0%
! CACAAAAAACAAAGGAAATT+TGG - chr1.4:2155841-2155860 MS.gene053298:CDS 25.0%
! TAAGAAACCACAAAAAACAA+AGG - chr1.4:2155833-2155852 MS.gene053298:CDS 25.0%
! TATTGAGTACTACTCTTTAT+GGG + chr1.4:2156161-2156180 None:intergenic 25.0%
! TTATTGAGTACTACTCTTTA+TGG + chr1.4:2156162-2156181 None:intergenic 25.0%
!!! CAAATTTCCTTTGTTTTTTG+TGG + chr1.4:2155843-2155862 None:intergenic 25.0%
ATCTTCACAACAATCTTACG+AGG + chr1.4:2155942-2155961 None:intergenic 35.0%
ATGCATGGTTAGAAAAGAAG+AGG - chr1.4:2156058-2156077 MS.gene053298:CDS 35.0%
GGTTCTATGAAGAAAGAAGA+AGG - chr1.4:2156008-2156027 MS.gene053298:CDS 35.0%
TCACAACAACAAGAAGAAGA+AGG - chr1.4:2155987-2156006 MS.gene053298:CDS 35.0%
TCGTAAGATTGTTGTGAAGA+TGG - chr1.4:2155941-2155960 MS.gene053298:CDS 35.0%
TGCATGGTTAGAAAAGAAGA+GGG - chr1.4:2156059-2156078 MS.gene053298:CDS 35.0%
! GAGATTCAACTTGTTCCAAA+AGG - chr1.4:2156089-2156108 MS.gene053298:CDS 35.0%
ATGGTTAGAAAAGAAGAGGG+AGG - chr1.4:2156062-2156081 MS.gene053298:CDS 40.0%
! ATCAGAAGTAGAAGCATGCA+TGG - chr1.4:2156043-2156062 MS.gene053298:CDS 40.0%
CCTCAACCTACCAGAAAAAG+AGG - chr1.4:2155912-2155931 MS.gene053298:CDS 45.0%
! ACGAGGTCTACCTCTTTTTC+TGG + chr1.4:2155925-2155944 None:intergenic 45.0%
! CAAGACACAGACACACCTTT+TGG + chr1.4:2156107-2156126 None:intergenic 45.0%
!! CCTCTTTTTCTGGTAGGTTG+AGG + chr1.4:2155915-2155934 None:intergenic 45.0%
!! GGTCTACCTCTTTTTCTGGT+AGG + chr1.4:2155921-2155940 None:intergenic 45.0%
CTTGTAGAAGCAGCAGAGCT+AGG - chr1.4:2156123-2156142 MS.gene053298:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 2155828 2156181 2155828 ID=MS.gene053298
chr1.4 mRNA 2155828 2156181 2155828 ID=MS.gene053298.t1;Parent=MS.gene053298
chr1.4 exon 2155828 2156181 2155828 ID=MS.gene053298.t1.exon1;Parent=MS.gene053298.t1
chr1.4 CDS 2155828 2156181 2155828 ID=cds.MS.gene053298.t1;Parent=MS.gene053298.t1
Gene Sequence

>MS.gene053298

ATGGGTAAGAAACCACAAAAAACAAAGGAAATTTGGGCAGCAATAGCTGAAGCATCATCAACAATAGATGAAAATCAAGAACAACCTCAACCTACCAGAAAAAGAGGTAGACCTCGTAAGATTGTTGTGAAGATGGAAAGTTCAGAAGAAAAAGCAGCTTCACAACAACAAGAAGAAGAAGGTTCTATGAAGAAAGAAGAAGGAACAAAAACATCATCAGAAGTAGAAGCATGCATGGTTAGAAAAGAAGAGGGAGGTGAAGAGATTCAACTTGTTCCAAAAGGTGTGTCTGTGTCTTGTAGAAGCAGCAGAGCTAGGCGTAAAAGCAAACCCATAAAGAGTAGTACTCAATAA

Protein sequence

>MS.gene053298.t1

MGKKPQKTKEIWAAIAEASSTIDENQEQPQPTRKRGRPRKIVVKMESSEEKAASQQQEEEGSMKKEEGTKTSSEVEACMVRKEEGGEEIQLVPKGVSVSCRSSRARRKSKPIKSSTQ