AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85697

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85697.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 6.1:-17428249 MS.gene85697:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 6.1:-17428257 MS.gene85697:CDS
TATAGGTGGGGTTCTATTCC+TGG 0.331534 6.1:+17428095 None:intergenic
TAAAGATCAACAAGATGTTT+TGG 0.333763 6.1:+17428280 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 6.1:-17428197 MS.gene85697:CDS
GAAAATGATGAAGATGATTA+TGG 0.391347 6.1:-17428205 MS.gene85697:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 6.1:-17428328 MS.gene85697:CDS
AGAAATCAGCAGCATCTAAG+TGG 0.464577 6.1:+17428167 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 6.1:-17428379 MS.gene85697:CDS
ACTTCAAAATAAGGATAAAA+GGG 0.487291 6.1:-17428248 MS.gene85697:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 6.1:-17428321 MS.gene85697:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 6.1:-17428113 MS.gene85697:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 6.1:-17428337 MS.gene85697:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 6.1:-17428334 MS.gene85697:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 6.1:+17428168 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG - chr6.1:17428114-17428133 MS.gene85697:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG - chr6.1:17428245-17428264 MS.gene85697:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG - chr6.1:17428244-17428263 MS.gene85697:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG - chr6.1:17428288-17428307 MS.gene85697:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG - chr6.1:17428296-17428315 MS.gene85697:CDS 25.0%
!! TAAAGATCAACAAGATGTTT+TGG + chr6.1:17428216-17428235 None:intergenic 25.0%
!! TATTTTCATCTCTAATGAGA+TGG + chr6.1:17428377-17428396 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG - chr6.1:17428380-17428399 MS.gene85697:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG - chr6.1:17428236-17428255 MS.gene85697:CDS 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG + chr6.1:17428239-17428258 None:intergenic 30.0%
! AGATGGTCAATCTTTTCATC+AGG + chr6.1:17428360-17428379 None:intergenic 35.0%
AGAAATCAGCAGCATCTAAG+TGG + chr6.1:17428329-17428348 None:intergenic 40.0%
GAAATCAGCAGCATCTAAGT+GGG + chr6.1:17428328-17428347 None:intergenic 40.0%
!! AGTATTTGCTATCGTTGTGG+AGG - chr6.1:17428159-17428178 MS.gene85697:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG - chr6.1:17428156-17428175 MS.gene85697:CDS 40.0%
GTTGTGGAGGAAAAGGTCAT+TGG - chr6.1:17428172-17428191 MS.gene85697:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG - chr6.1:17428165-17428184 MS.gene85697:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG + chr6.1:17428205-17428224 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 17428108 17428407 17428108 ID=MS.gene85697
chr6.1 mRNA 17428108 17428407 17428108 ID=MS.gene85697.t1;Parent=MS.gene85697
chr6.1 exon 17428108 17428407 17428108 ID=MS.gene85697.t1.exon1;Parent=MS.gene85697.t1
chr6.1 CDS 17428108 17428407 17428108 ID=cds.MS.gene85697.t1;Parent=MS.gene85697.t1
Gene Sequence

>MS.gene85697

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACGCACTTTGCATGCGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTGATCCTGATGAAAAGATTGACCATCTCATTAGAGATGAAAATATCCAGGAATAG
Protein sequence

>MS.gene85697.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE