AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67988

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67988.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 6.4:+11282116 MS.gene67988:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 6.4:+11282108 MS.gene67988:CDS
TATAGGTGGGGTTCTATTCC+TGG 0.331534 6.4:-11282270 None:intergenic
TAAAGATCAACAAGATGTTT+TGG 0.333763 6.4:-11282085 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 6.4:+11282168 MS.gene67988:CDS
GAAAATGATGAAGATGATTA+TGG 0.391347 6.4:+11282160 MS.gene67988:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 6.4:+11282037 MS.gene67988:CDS
AGAAATCAGCAGCATCTAAG+TGG 0.464577 6.4:-11282198 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 6.4:+11281986 MS.gene67988:CDS
ACTTCAAAATAAGGATAAAA+GGG 0.487291 6.4:+11282117 MS.gene67988:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 6.4:+11282044 MS.gene67988:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 6.4:+11282252 MS.gene67988:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 6.4:+11282028 MS.gene67988:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 6.4:+11282031 MS.gene67988:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 6.4:-11282197 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG + chr6.4:11281986-11282005 MS.gene67988:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG + chr6.4:11282117-11282136 MS.gene67988:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG + chr6.4:11282116-11282135 MS.gene67988:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG + chr6.4:11282160-11282179 MS.gene67988:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG + chr6.4:11282168-11282187 MS.gene67988:CDS 25.0%
!! TAAAGATCAACAAGATGTTT+TGG - chr6.4:11282088-11282107 None:intergenic 25.0%
!! TATTTTCATCTCTAATGAGA+TGG - chr6.4:11282249-11282268 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG + chr6.4:11282252-11282271 MS.gene67988:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG + chr6.4:11282108-11282127 MS.gene67988:CDS 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG - chr6.4:11282111-11282130 None:intergenic 30.0%
! AGATGGTCAATCTTTTCATC+AGG - chr6.4:11282232-11282251 None:intergenic 35.0%
AGAAATCAGCAGCATCTAAG+TGG - chr6.4:11282201-11282220 None:intergenic 40.0%
GAAATCAGCAGCATCTAAGT+GGG - chr6.4:11282200-11282219 None:intergenic 40.0%
!! AGTATTTGCTATCGTTGTGG+AGG + chr6.4:11282031-11282050 MS.gene67988:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG + chr6.4:11282028-11282047 MS.gene67988:CDS 40.0%
GTTGTGGAGGAAAAGGTCAT+TGG + chr6.4:11282044-11282063 MS.gene67988:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG + chr6.4:11282037-11282056 MS.gene67988:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG - chr6.4:11282077-11282096 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 11281980 11282279 11281980 ID=MS.gene67988
chr6.4 mRNA 11281980 11282279 11281980 ID=MS.gene67988.t1;Parent=MS.gene67988
chr6.4 exon 11281980 11282279 11281980 ID=MS.gene67988.t1.exon1;Parent=MS.gene67988.t1
chr6.4 CDS 11281980 11282279 11281980 ID=cds.MS.gene67988.t1;Parent=MS.gene67988.t1
Gene Sequence

>MS.gene67988

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACGCACTTTGCATGCGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTGATCCTGATGAAAAGATTGACCATCTCATTAGAGATGAAAATATCCAGGAATAG
Protein sequence

>MS.gene67988.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE