AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene68388

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene68388.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 16 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 1.3:+27166796 MS.gene68388:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 1.3:+27166788 MS.gene68388:CDS
TATAGGTGGGGTTCTATTCC+TGG 0.331534 1.3:-27166950 None:intergenic
TAAAGATCAACAAGATGTTT+TGG 0.333763 1.3:-27166765 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 1.3:+27166848 MS.gene68388:CDS
GAAAATGATGAAGATGATTA+TGG 0.391347 1.3:+27166840 MS.gene68388:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 1.3:+27166717 MS.gene68388:CDS
AATGTTGTAAAGAATGATAT+TGG 0.471241 1.3:+27166666 MS.gene68388:CDS
AGAAATCCGCAGCATCTAAG+TGG 0.475227 1.3:-27166878 None:intergenic
ACTTCAAAATAAGGATAAAA+GGG 0.487291 1.3:+27166797 MS.gene68388:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 1.3:+27166724 MS.gene68388:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 1.3:+27166932 MS.gene68388:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 1.3:+27166708 MS.gene68388:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 1.3:+27166711 MS.gene68388:CDS
AAGTACCCACTTAGATGCTG+CGG 0.642923 1.3:+27166872 MS.gene68388:CDS
GAAATCCGCAGCATCTAAGT+GGG 0.644373 1.3:-27166877 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG + chr1.3:27166666-27166685 MS.gene68388:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG + chr1.3:27166797-27166816 MS.gene68388:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG + chr1.3:27166796-27166815 MS.gene68388:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG + chr1.3:27166840-27166859 MS.gene68388:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG + chr1.3:27166848-27166867 MS.gene68388:CDS 25.0%
!! TAAAGATCAACAAGATGTTT+TGG - chr1.3:27166768-27166787 None:intergenic 25.0%
!! TATTTTCATCTCTAATGAGA+TGG - chr1.3:27166929-27166948 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG + chr1.3:27166932-27166951 MS.gene68388:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG + chr1.3:27166788-27166807 MS.gene68388:CDS 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG - chr1.3:27166791-27166810 None:intergenic 30.0%
! AGATGGTCAATCTTTTCATC+AGG - chr1.3:27166912-27166931 None:intergenic 35.0%
!! AGTATTTGCTATCGTTGTGG+AGG + chr1.3:27166711-27166730 MS.gene68388:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG + chr1.3:27166708-27166727 MS.gene68388:CDS 40.0%
AAGTACCCACTTAGATGCTG+CGG + chr1.3:27166872-27166891 MS.gene68388:CDS 45.0%
AGAAATCCGCAGCATCTAAG+TGG - chr1.3:27166881-27166900 None:intergenic 45.0%
GAAATCCGCAGCATCTAAGT+GGG - chr1.3:27166880-27166899 None:intergenic 45.0%
GTTGTGGAGGAAAAGGTCAT+TGG + chr1.3:27166724-27166743 MS.gene68388:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG + chr1.3:27166717-27166736 MS.gene68388:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG - chr1.3:27166757-27166776 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 27166660 27166959 27166660 ID=MS.gene68388
chr1.3 mRNA 27166660 27166959 27166660 ID=MS.gene68388.t1;Parent=MS.gene68388
chr1.3 exon 27166660 27166959 27166660 ID=MS.gene68388.t1.exon1;Parent=MS.gene68388.t1
chr1.3 CDS 27166660 27166959 27166660 ID=cds.MS.gene68388.t1;Parent=MS.gene68388.t1
Gene Sequence

>MS.gene68388

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACGCACTTTGCATGCGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCGGATTTCTTTGTTGATCCTGATGAAAAGATTGACCATCTCATTAGAGATGAAAATATCCAGGAATAG
Protein sequence

>MS.gene68388.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE