AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85695

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85695.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:-17453316 MS.gene85695:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 6.1:-17453324 MS.gene85695:CDS
TATAGGTGGGGTTCTATTCC+TGG 0.331534 6.1:+17453162 None:intergenic
TAAAGATCAACAAGATGTTT+TGG 0.333763 6.1:+17453347 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 6.1:-17453264 MS.gene85695:CDS
GAAAATGATGAAGATGATTA+TGG 0.391347 6.1:-17453272 MS.gene85695:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 6.1:-17453395 MS.gene85695:CDS
AGAAATCAGCAGCATCTAAG+TGG 0.464577 6.1:+17453234 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 6.1:-17453446 MS.gene85695:CDS
ACTTCAAAATAAGGATAAAA+GGG 0.487291 6.1:-17453315 MS.gene85695:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 6.1:-17453388 MS.gene85695:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 6.1:-17453180 MS.gene85695:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 6.1:-17453404 MS.gene85695:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 6.1:-17453401 MS.gene85695:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 6.1:+17453235 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG - chr6.1:17453181-17453200 MS.gene85695:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG - chr6.1:17453312-17453331 MS.gene85695:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG - chr6.1:17453311-17453330 MS.gene85695:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG - chr6.1:17453355-17453374 MS.gene85695:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG - chr6.1:17453363-17453382 MS.gene85695:CDS 25.0%
!! TAAAGATCAACAAGATGTTT+TGG + chr6.1:17453283-17453302 None:intergenic 25.0%
!! TATTTTCATCTCTAATGAGA+TGG + chr6.1:17453444-17453463 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG - chr6.1:17453447-17453466 MS.gene85695:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG - chr6.1:17453303-17453322 MS.gene85695:CDS 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG + chr6.1:17453306-17453325 None:intergenic 30.0%
! AGATGGTCAATCTTTTCATC+AGG + chr6.1:17453427-17453446 None:intergenic 35.0%
AGAAATCAGCAGCATCTAAG+TGG + chr6.1:17453396-17453415 None:intergenic 40.0%
GAAATCAGCAGCATCTAAGT+GGG + chr6.1:17453395-17453414 None:intergenic 40.0%
!! AGTATTTGCTATCGTTGTGG+AGG - chr6.1:17453226-17453245 MS.gene85695:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG - chr6.1:17453223-17453242 MS.gene85695:CDS 40.0%
GTTGTGGAGGAAAAGGTCAT+TGG - chr6.1:17453239-17453258 MS.gene85695:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG - chr6.1:17453232-17453251 MS.gene85695:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG + chr6.1:17453272-17453291 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 17453175 17453474 17453175 ID=MS.gene85695
chr6.1 mRNA 17453175 17453474 17453175 ID=MS.gene85695.t1;Parent=MS.gene85695
chr6.1 exon 17453175 17453474 17453175 ID=MS.gene85695.t1.exon1;Parent=MS.gene85695.t1
chr6.1 CDS 17453175 17453474 17453175 ID=cds.MS.gene85695.t1;Parent=MS.gene85695.t1
Gene Sequence

>MS.gene85695

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACGCACTTTGCATGCGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTGATCCTGATGAAAAGATTGACCATCTCATTAGAGATGAAAATATCCAGGAATAG
Protein sequence

>MS.gene85695.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE