AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene37154

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37154.t1 MTR_5g028510 38.462 143 72 6 55 190 37 170 7.29e-16 74.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 35 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGTCTCACAATTTCTAATT+TGG 0.166001 6.2:-11492361 None:intergenic
CACGAAGGAGTTGGTTAAAA+TGG 0.194880 6.2:+11492631 MS.gene37154:CDS
CAAGAGATAATTACTTAGAT+TGG 0.322536 6.2:+11492189 MS.gene37154:CDS
TAATTTGGCGAAGAGTATAA+TGG 0.394639 6.2:-11492346 None:intergenic
AAGAACTTCAAGAACTATTC+CGG 0.397227 6.2:-11492165 None:intergenic
ACGAAGGAGTTGGTTAAAAT+GGG 0.422263 6.2:+11492632 MS.gene37154:CDS
AAGAGAAGTCCGACCATTAG+AGG 0.427062 6.2:-11492576 None:intergenic
TCGCAAAAGTCATCCTCTAA+TGG 0.429786 6.2:+11492563 MS.gene37154:CDS
CATTATTGACAGAGAAAGAC+TGG 0.463697 6.2:+11492657 MS.gene37154:CDS
TTTATAGCAGCAAGAGCAAA+AGG 0.466505 6.2:-11492692 None:intergenic
TGATAGTTGAATAGCATGTA+AGG 0.473270 6.2:-11492318 None:intergenic
CAATCAGATAATTCTTCACC+AGG 0.492393 6.2:-11492217 None:intergenic
CTTCACGTCGCAGTTGATGC+AGG 0.504019 6.2:+11492596 MS.gene37154:CDS
GTGAGACAGCACAAGAGGCT+TGG 0.519093 6.2:+11492375 MS.gene37154:CDS
TTTCATGTGGCAGTGAAGAA+AGG 0.529357 6.2:+11492491 MS.gene37154:CDS
TTACTTAGATTGGAGTGCCC+TGG 0.533613 6.2:+11492199 MS.gene37154:CDS
AGATAAAATCACGAAGGAGT+TGG 0.549659 6.2:+11492622 MS.gene37154:CDS
CTGTGGGACAATATTGTTGT+GGG 0.553598 6.2:+11492248 MS.gene37154:CDS
GCTGCAAATATTGCATCGAC+CGG 0.562687 6.2:+11492146 MS.gene37154:CDS
AAATTGTGAGACAGCACAAG+AGG 0.575067 6.2:+11492370 MS.gene37154:CDS
TCAAACAATGATATTGAGCA+AGG 0.579795 6.2:+11492443 MS.gene37154:CDS
CTGGTGAAGAATTATCTGAT+TGG 0.580140 6.2:+11492218 MS.gene37154:CDS
AAAAGTCATCCTCTAATGGT+CGG 0.609201 6.2:+11492567 MS.gene37154:CDS
CGAAGGAGTTGGTTAAAATG+GGG 0.621899 6.2:+11492633 MS.gene37154:CDS
TTGACAGAGAAAGACTGGGA+GGG 0.651637 6.2:+11492662 MS.gene37154:CDS
CATGCTATTCAACTATCATG+TGG 0.655863 6.2:+11492323 MS.gene37154:CDS
TCTGTGGGACAATATTGTTG+TGG 0.667107 6.2:+11492247 MS.gene37154:CDS
GAAGGAGTTGGTTAAAATGG+GGG 0.670276 6.2:+11492634 MS.gene37154:CDS
TGATATTGACATGTTTCATG+TGG 0.682509 6.2:+11492478 MS.gene37154:CDS
TGGCAGTGAAGAAAGGCATG+TGG 0.690650 6.2:+11492498 MS.gene37154:CDS
ATTATTGACAGAGAAAGACT+GGG 0.695061 6.2:+11492658 MS.gene37154:CDS
AACAATGATATTGAGCAAGG+AGG 0.697551 6.2:+11492446 MS.gene37154:CDS
ATTGACAGAGAAAGACTGGG+AGG 0.702293 6.2:+11492661 MS.gene37154:CDS
AGGACAAGATAAAATCACGA+AGG 0.725327 6.2:+11492616 MS.gene37154:CDS
AATCAGATAATTCTTCACCA+GGG 0.736315 6.2:-11492216 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCTAATTGGAAATCAAAAAA+TGG + chr6.2:11492290-11492309 MS.gene37154:CDS 20.0%
! CAAGAGATAATTACTTAGAT+TGG + chr6.2:11492189-11492208 MS.gene37154:CDS 25.0%
!! GATTTCCAATTAGACTTTTT+AGG - chr6.2:11492284-11492303 None:intergenic 25.0%
!!! ATTTTGTTTATCAGGAATGA+CGG + chr6.2:11492530-11492549 MS.gene37154:CDS 25.0%
AAGAACTTCAAGAACTATTC+CGG - chr6.2:11492168-11492187 None:intergenic 30.0%
AATCAGATAATTCTTCACCA+GGG - chr6.2:11492219-11492238 None:intergenic 30.0%
ATTATTGACAGAGAAAGACT+GGG + chr6.2:11492658-11492677 MS.gene37154:CDS 30.0%
CTGTCTCACAATTTCTAATT+TGG - chr6.2:11492364-11492383 None:intergenic 30.0%
TCAAACAATGATATTGAGCA+AGG + chr6.2:11492443-11492462 MS.gene37154:CDS 30.0%
TCGATCCTAAAAAGTCTAAT+TGG + chr6.2:11492276-11492295 MS.gene37154:CDS 30.0%
TGATAGTTGAATAGCATGTA+AGG - chr6.2:11492321-11492340 None:intergenic 30.0%
TGATATTGACATGTTTCATG+TGG + chr6.2:11492478-11492497 MS.gene37154:CDS 30.0%
! TAATTTGGCGAAGAGTATAA+TGG - chr6.2:11492349-11492368 None:intergenic 30.0%
AAAAGTCATCCTCTAATGGT+CGG + chr6.2:11492567-11492586 MS.gene37154:CDS 35.0%
AACAATGATATTGAGCAAGG+AGG + chr6.2:11492446-11492465 MS.gene37154:CDS 35.0%
AGATAAAATCACGAAGGAGT+TGG + chr6.2:11492622-11492641 MS.gene37154:CDS 35.0%
AGGACAAGATAAAATCACGA+AGG + chr6.2:11492616-11492635 MS.gene37154:CDS 35.0%
ATCTGATTGGCAAAAATCTG+TGG + chr6.2:11492231-11492250 MS.gene37154:CDS 35.0%
CAATCAGATAATTCTTCACC+AGG - chr6.2:11492220-11492239 None:intergenic 35.0%
CATGCTATTCAACTATCATG+TGG + chr6.2:11492323-11492342 MS.gene37154:CDS 35.0%
CATTATTGACAGAGAAAGAC+TGG + chr6.2:11492657-11492676 MS.gene37154:CDS 35.0%
CTGGTGAAGAATTATCTGAT+TGG + chr6.2:11492218-11492237 MS.gene37154:CDS 35.0%
TCTGATTGGCAAAAATCTGT+GGG + chr6.2:11492232-11492251 MS.gene37154:CDS 35.0%
TTTATAGCAGCAAGAGCAAA+AGG - chr6.2:11492695-11492714 None:intergenic 35.0%
! ACGAAGGAGTTGGTTAAAAT+GGG + chr6.2:11492632-11492651 MS.gene37154:CDS 35.0%
!! ATGACGCGATTTTGTTTATC+AGG + chr6.2:11492522-11492541 MS.gene37154:CDS 35.0%
AAATTGTGAGACAGCACAAG+AGG + chr6.2:11492370-11492389 MS.gene37154:CDS 40.0%
CTGTGGGACAATATTGTTGT+GGG + chr6.2:11492248-11492267 MS.gene37154:CDS 40.0%
TCGCAAAAGTCATCCTCTAA+TGG + chr6.2:11492563-11492582 MS.gene37154:CDS 40.0%
TCTGTGGGACAATATTGTTG+TGG + chr6.2:11492247-11492266 MS.gene37154:CDS 40.0%
TTTCATGTGGCAGTGAAGAA+AGG + chr6.2:11492491-11492510 MS.gene37154:CDS 40.0%
! CACGAAGGAGTTGGTTAAAA+TGG + chr6.2:11492631-11492650 MS.gene37154:CDS 40.0%
! CGAAGGAGTTGGTTAAAATG+GGG + chr6.2:11492633-11492652 MS.gene37154:CDS 40.0%
! GAAGGAGTTGGTTAAAATGG+GGG + chr6.2:11492634-11492653 MS.gene37154:CDS 40.0%
AAGAGAAGTCCGACCATTAG+AGG - chr6.2:11492579-11492598 None:intergenic 45.0%
ATTGACAGAGAAAGACTGGG+AGG + chr6.2:11492661-11492680 MS.gene37154:CDS 45.0%
TTGACAGAGAAAGACTGGGA+GGG + chr6.2:11492662-11492681 MS.gene37154:CDS 45.0%
! GCTGCAAATATTGCATCGAC+CGG + chr6.2:11492146-11492165 MS.gene37154:CDS 45.0%
! TTACTTAGATTGGAGTGCCC+TGG + chr6.2:11492199-11492218 MS.gene37154:CDS 45.0%
! TGGCAGTGAAGAAAGGCATG+TGG + chr6.2:11492498-11492517 MS.gene37154:CDS 50.0%
GTGAGACAGCACAAGAGGCT+TGG + chr6.2:11492375-11492394 MS.gene37154:CDS 55.0%
! CTTCACGTCGCAGTTGATGC+AGG + chr6.2:11492596-11492615 MS.gene37154:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 11492140 11492733 11492140 ID=MS.gene37154
chr6.2 mRNA 11492140 11492733 11492140 ID=MS.gene37154.t1;Parent=MS.gene37154
chr6.2 exon 11492140 11492733 11492140 ID=MS.gene37154.t1.exon1;Parent=MS.gene37154.t1
chr6.2 CDS 11492140 11492733 11492140 ID=cds.MS.gene37154.t1;Parent=MS.gene37154.t1
Gene Sequence

>MS.gene37154

ATGGCAGCTGCAAATATTGCATCGACCGGAATAGTTCTTGAAGTTCTTACAAGAGATAATTACTTAGATTGGAGTGCCCTGGTGAAGAATTATCTGATTGGCAAAAATCTGTGGGACAATATTGTTGTGGGTAATGTCGATCCTAAAAAGTCTAATTGGAAATCAAAAAATGGTCAAGCCTTACATGCTATTCAACTATCATGTGGCCATTATACTCTTCGCCAAATTAGAAATTGTGAGACAGCACAAGAGGCTTGGAATCACTTAAAAGCTGTTTTTAGCGAAGATTTAAGAGCAGACATATCAAACAATGATATTGAGCAAGGAGGTCTACGAAGTGATATTGACATGTTTCATGTGGCAGTGAAGAAAGGCATGTGGAATGACGCGATTTTGTTTATCAGGAATGACGGAGTTATTATCTCGCAAAAGTCATCCTCTAATGGTCGGACTTCTCTTCACGTCGCAGTTGATGCAGGACAAGATAAAATCACGAAGGAGTTGGTTAAAATGGGGGCATTATTGACAGAGAAAGACTGGGAGGGATACACACCTTTTGCTCTTGCTGCTATAAAATTATATAAACTTCTATAA
Protein sequence

>MS.gene37154.t1

MAAANIASTGIVLEVLTRDNYLDWSALVKNYLIGKNLWDNIVVGNVDPKKSNWKSKNGQALHAIQLSCGHYTLRQIRNCETAQEAWNHLKAVFSEDLRADISNNDIEQGGLRSDIDMFHVAVKKGMWNDAILFIRNDGVIISQKSSSNGRTSLHVAVDAGQDKITKELVKMGALLTEKDWEGYTPFALAAIKLYKLL