AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene59728

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene59728.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 5.4:-44127570 MS.gene59728:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 5.4:-44127578 MS.gene59728:CDS
TATAGGTGGGGTTCTATTCC+TGG 0.331534 5.4:+44127416 None:intergenic
TAAAGATCAACAAGATGTTT+TGG 0.333763 5.4:+44127601 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 5.4:-44127518 MS.gene59728:CDS
GAAAATGATGAAGATGATTA+TGG 0.391347 5.4:-44127526 MS.gene59728:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 5.4:-44127649 MS.gene59728:CDS
AGAAATCAGCAGCATCTAAG+TGG 0.464577 5.4:+44127488 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 5.4:-44127700 MS.gene59728:CDS
ACTTCAAAATAAGGATAAAA+GGG 0.487291 5.4:-44127569 MS.gene59728:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 5.4:-44127642 MS.gene59728:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 5.4:-44127434 MS.gene59728:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 5.4:-44127658 MS.gene59728:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 5.4:-44127655 MS.gene59728:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 5.4:+44127489 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG - chr5.4:44127435-44127454 MS.gene59728:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG - chr5.4:44127566-44127585 MS.gene59728:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG - chr5.4:44127565-44127584 MS.gene59728:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG - chr5.4:44127609-44127628 MS.gene59728:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG - chr5.4:44127617-44127636 MS.gene59728:CDS 25.0%
!! TAAAGATCAACAAGATGTTT+TGG + chr5.4:44127537-44127556 None:intergenic 25.0%
!! TATTTTCATCTCTAATGAGA+TGG + chr5.4:44127698-44127717 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG - chr5.4:44127701-44127720 MS.gene59728:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG - chr5.4:44127557-44127576 MS.gene59728:CDS 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG + chr5.4:44127560-44127579 None:intergenic 30.0%
! AGATGGTCAATCTTTTCATC+AGG + chr5.4:44127681-44127700 None:intergenic 35.0%
AGAAATCAGCAGCATCTAAG+TGG + chr5.4:44127650-44127669 None:intergenic 40.0%
GAAATCAGCAGCATCTAAGT+GGG + chr5.4:44127649-44127668 None:intergenic 40.0%
!! AGTATTTGCTATCGTTGTGG+AGG - chr5.4:44127480-44127499 MS.gene59728:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG - chr5.4:44127477-44127496 MS.gene59728:CDS 40.0%
GTTGTGGAGGAAAAGGTCAT+TGG - chr5.4:44127493-44127512 MS.gene59728:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG - chr5.4:44127486-44127505 MS.gene59728:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG + chr5.4:44127526-44127545 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 44127429 44127728 44127429 ID=MS.gene59728
chr5.4 mRNA 44127429 44127728 44127429 ID=MS.gene59728.t1;Parent=MS.gene59728
chr5.4 exon 44127429 44127728 44127429 ID=MS.gene59728.t1.exon1;Parent=MS.gene59728.t1
chr5.4 CDS 44127429 44127728 44127429 ID=cds.MS.gene59728.t1;Parent=MS.gene59728.t1
Gene Sequence

>MS.gene59728

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACGCACTTTGCATGCGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTGATCCTGATGAAAAGATTGACCATCTCATTAGAGATGAAAATATCCAGGAATAG
Protein sequence

>MS.gene59728.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE