AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67984

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67984.t1 MTR_1g036690 57.317 82 28 3 19 99 5 80 4.89e-24 87.4
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:-11238457 MS.gene67984:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 6.4:-11238465 MS.gene67984:CDS
TATAGGTGGGGTTCTATTCC+TGG 0.331534 6.4:+11238303 None:intergenic
TAAAGATCAACAAGATGTTT+TGG 0.333763 6.4:+11238488 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 6.4:-11238405 MS.gene67984:CDS
GAAAATGATGAAGATGATTA+TGG 0.391347 6.4:-11238413 MS.gene67984:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 6.4:-11238536 MS.gene67984:CDS
AGAAATCAGCAGCATCTAAG+TGG 0.464577 6.4:+11238375 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 6.4:-11238587 MS.gene67984:CDS
ACTTCAAAATAAGGATAAAA+GGG 0.487291 6.4:-11238456 MS.gene67984:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 6.4:-11238529 MS.gene67984:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 6.4:-11238321 MS.gene67984:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 6.4:-11238545 MS.gene67984:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 6.4:-11238542 MS.gene67984:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 6.4:+11238376 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG - chr6.4:11238322-11238341 MS.gene67984:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG - chr6.4:11238453-11238472 MS.gene67984:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG - chr6.4:11238452-11238471 MS.gene67984:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG - chr6.4:11238496-11238515 MS.gene67984:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG - chr6.4:11238504-11238523 MS.gene67984:CDS 25.0%
!! TAAAGATCAACAAGATGTTT+TGG + chr6.4:11238424-11238443 None:intergenic 25.0%
!! TATTTTCATCTCTAATGAGA+TGG + chr6.4:11238585-11238604 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG - chr6.4:11238588-11238607 MS.gene67984:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG - chr6.4:11238444-11238463 MS.gene67984:CDS 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG + chr6.4:11238447-11238466 None:intergenic 30.0%
! AGATGGTCAATCTTTTCATC+AGG + chr6.4:11238568-11238587 None:intergenic 35.0%
AGAAATCAGCAGCATCTAAG+TGG + chr6.4:11238537-11238556 None:intergenic 40.0%
GAAATCAGCAGCATCTAAGT+GGG + chr6.4:11238536-11238555 None:intergenic 40.0%
!! AGTATTTGCTATCGTTGTGG+AGG - chr6.4:11238367-11238386 MS.gene67984:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG - chr6.4:11238364-11238383 MS.gene67984:CDS 40.0%
GTTGTGGAGGAAAAGGTCAT+TGG - chr6.4:11238380-11238399 MS.gene67984:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG - chr6.4:11238373-11238392 MS.gene67984:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG + chr6.4:11238413-11238432 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 11238316 11238615 11238316 ID=MS.gene67984
chr6.4 mRNA 11238316 11238615 11238316 ID=MS.gene67984.t1;Parent=MS.gene67984
chr6.4 exon 11238316 11238615 11238316 ID=MS.gene67984.t1.exon1;Parent=MS.gene67984.t1
chr6.4 CDS 11238316 11238615 11238316 ID=cds.MS.gene67984.t1;Parent=MS.gene67984.t1
Gene Sequence

>MS.gene67984

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACGCACTTTGCATGCGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTCATCCTGATGAAAAGATTGACCATCTCATTAGAGATGAAAATATCCAGGAATAG
Protein sequence

>MS.gene67984.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVHPDEKIDHLIRDENIQE