AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67986

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67986.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 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACTTCAAAATAAGGATAAA+AGG 0.234592 6.4:+11268212 MS.gene67986:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 6.4:+11268204 MS.gene67986:CDS
TATAGGTGGGGTTCTATTCC+TGG 0.331534 6.4:-11268366 None:intergenic
TAAAGATCAACAAGATGTTT+TGG 0.333763 6.4:-11268181 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 6.4:+11268264 MS.gene67986:CDS
GAAAATGATGAAGATGATTA+TGG 0.391347 6.4:+11268256 MS.gene67986:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 6.4:+11268133 MS.gene67986:CDS
AGAAATCAGCAGCATCTAAG+TGG 0.464577 6.4:-11268294 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 6.4:+11268082 MS.gene67986:CDS
ACTTCAAAATAAGGATAAAA+GGG 0.487291 6.4:+11268213 MS.gene67986:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 6.4:+11268140 MS.gene67986:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 6.4:+11268348 MS.gene67986:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 6.4:+11268124 MS.gene67986:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 6.4:+11268127 MS.gene67986:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 6.4:-11268293 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG + chr6.4:11268082-11268101 MS.gene67986:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG + chr6.4:11268213-11268232 MS.gene67986:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG + chr6.4:11268212-11268231 MS.gene67986:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG + chr6.4:11268256-11268275 MS.gene67986:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG + chr6.4:11268264-11268283 MS.gene67986:CDS 25.0%
!! TAAAGATCAACAAGATGTTT+TGG - chr6.4:11268184-11268203 None:intergenic 25.0%
!! TATTTTCATCTCTAATGAGA+TGG - chr6.4:11268345-11268364 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG + chr6.4:11268348-11268367 MS.gene67986:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG + chr6.4:11268204-11268223 MS.gene67986:CDS 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG - chr6.4:11268207-11268226 None:intergenic 30.0%
! AGATGGTCAATCTTTTCATC+AGG - chr6.4:11268328-11268347 None:intergenic 35.0%
AGAAATCAGCAGCATCTAAG+TGG - chr6.4:11268297-11268316 None:intergenic 40.0%
GAAATCAGCAGCATCTAAGT+GGG - chr6.4:11268296-11268315 None:intergenic 40.0%
!! AGTATTTGCTATCGTTGTGG+AGG + chr6.4:11268127-11268146 MS.gene67986:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG + chr6.4:11268124-11268143 MS.gene67986:CDS 40.0%
GTTGTGGAGGAAAAGGTCAT+TGG + chr6.4:11268140-11268159 MS.gene67986:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG + chr6.4:11268133-11268152 MS.gene67986:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG - chr6.4:11268173-11268192 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 11268076 11268375 11268076 ID=MS.gene67986
chr6.4 mRNA 11268076 11268375 11268076 ID=MS.gene67986.t1;Parent=MS.gene67986
chr6.4 exon 11268076 11268375 11268076 ID=MS.gene67986.t1.exon1;Parent=MS.gene67986.t1
chr6.4 CDS 11268076 11268375 11268076 ID=cds.MS.gene67986.t1;Parent=MS.gene67986.t1
Gene Sequence

>MS.gene67986

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACGCACTTTGCATGCGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTGATCCTGATGAAAAGATTGACCATCTCATTAGAGATGAAAATATCCAGGAATAG
Protein sequence

>MS.gene67986.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE