AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059272


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059272.t1 MTR_1g036690 58.537 82 27 3 19 99 5 80 2.63e-25 90.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 15 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACTTCAAAATAAGGATAAA+AGG 0.234592 4.4:-74788147 MS.gene059272:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 4.4:-74788155 MS.gene059272:CDS
TATAGGTGGGGTTCTATTCC+TGG 0.331534 4.4:+74787993 None:intergenic
TAAAGATCAACAAGATGTTT+TGG 0.333763 4.4:+74788178 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 4.4:-74788095 MS.gene059272:CDS
GAAAATGATGAAGATGATTA+TGG 0.394855 4.4:-74788103 MS.gene059272:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 4.4:-74788226 MS.gene059272:CDS
AGAAATCAGCAGCATCTAAG+TGG 0.464577 4.4:+74788065 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 4.4:-74788277 MS.gene059272:CDS
ACTTCAAAATAAGGATAAAA+GGG 0.487291 4.4:-74788146 MS.gene059272:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 4.4:-74788219 MS.gene059272:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 4.4:-74788011 MS.gene059272:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 4.4:-74788235 MS.gene059272:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 4.4:-74788232 MS.gene059272:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 4.4:+74788066 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG - chr4.4:74788012-74788031 MS.gene059272:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG - chr4.4:74788143-74788162 MS.gene059272:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG - chr4.4:74788142-74788161 MS.gene059272:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG - chr4.4:74788186-74788205 MS.gene059272:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG - chr4.4:74788194-74788213 MS.gene059272:CDS 25.0%
!! ATCATTTTCACATGCAAAAT+GGG + chr4.4:74788175-74788194 None:intergenic 25.0%
!! TAAAGATCAACAAGATGTTT+TGG + chr4.4:74788114-74788133 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG - chr4.4:74788278-74788297 MS.gene059272:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG - chr4.4:74788134-74788153 MS.gene059272:CDS 30.0%
! AGATGATCAATCTTTTCATC+AGG + chr4.4:74788258-74788277 None:intergenic 30.0%
! CATCATTTTCACATGCAAAA+TGG + chr4.4:74788176-74788195 None:intergenic 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG + chr4.4:74788137-74788156 None:intergenic 30.0%
AGAAATCAGCAGCATCTAAG+TGG + chr4.4:74788227-74788246 None:intergenic 40.0%
GAAATCAGCAGCATCTAAGT+GGG + chr4.4:74788226-74788245 None:intergenic 40.0%
!! AGTATTTGCTATCGTTGTGG+AGG - chr4.4:74788057-74788076 MS.gene059272:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG - chr4.4:74788054-74788073 MS.gene059272:CDS 40.0%
GTTGTGGAGGAAAAGGTCAT+TGG - chr4.4:74788070-74788089 MS.gene059272:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG - chr4.4:74788063-74788082 MS.gene059272:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG + chr4.4:74788103-74788122 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 74788006 74788305 74788006 ID=MS.gene059272
chr4.4 mRNA 74788006 74788305 74788006 ID=MS.gene059272.t1;Parent=MS.gene059272
chr4.4 exon 74788006 74788305 74788006 ID=MS.gene059272.t1.exon1;Parent=MS.gene059272.t1
chr4.4 CDS 74788006 74788305 74788006 ID=cds.MS.gene059272.t1;Parent=MS.gene059272.t1
Gene Sequence

>MS.gene059272

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACCCATTTTGCATGTGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTGATCCTGATGAAAAGATTGATCATCTCATTAGAGATGAAAATATCCAGGAATAG

Protein sequence

>MS.gene059272.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE