AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67983

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67983.t1 MTR_1g036690 57.317 82 28 3 19 99 5 80 2.74e-24 87.8
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:+11232290 MS.gene67983:CDS
CCAACAATCACTTCAAAATA+AGG 0.303940 6.4:+11232282 MS.gene67983:CDS
TATAGGTGGGGTTCTATTCC+TGG 0.331534 6.4:-11232444 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 6.4:+11232342 MS.gene67983:CDS
TTAAGATCAACAAGATGTTT+TGG 0.353604 6.4:-11232259 None:intergenic
GAAAATGATGAAGATGATTA+TGG 0.391347 6.4:+11232334 MS.gene67983:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 6.4:+11232211 MS.gene67983:CDS
AGAAATCAGCAGCATCTAAG+TGG 0.464577 6.4:-11232372 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 6.4:+11232160 MS.gene67983:CDS
ACTTCAAAATAAGGATAAAA+GGG 0.487291 6.4:+11232291 MS.gene67983:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 6.4:+11232218 MS.gene67983:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 6.4:+11232426 MS.gene67983:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 6.4:+11232202 MS.gene67983:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 6.4:+11232205 MS.gene67983:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 6.4:-11232371 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG + chr6.4:11232160-11232179 MS.gene67983:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG + chr6.4:11232291-11232310 MS.gene67983:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG + chr6.4:11232290-11232309 MS.gene67983:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG + chr6.4:11232334-11232353 MS.gene67983:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG + chr6.4:11232342-11232361 MS.gene67983:CDS 25.0%
!! TATTTTCATCTCTAATGAGA+TGG - chr6.4:11232423-11232442 None:intergenic 25.0%
!! TTAAGATCAACAAGATGTTT+TGG - chr6.4:11232262-11232281 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG + chr6.4:11232426-11232445 MS.gene67983:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG + chr6.4:11232282-11232301 MS.gene67983:CDS 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG - chr6.4:11232285-11232304 None:intergenic 30.0%
! AGATGGTCAATCTTTTCATC+AGG - chr6.4:11232406-11232425 None:intergenic 35.0%
AGAAATCAGCAGCATCTAAG+TGG - chr6.4:11232375-11232394 None:intergenic 40.0%
GAAATCAGCAGCATCTAAGT+GGG - chr6.4:11232374-11232393 None:intergenic 40.0%
!! AGTATTTGCTATCGTTGTGG+AGG + chr6.4:11232205-11232224 MS.gene67983:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG + chr6.4:11232202-11232221 MS.gene67983:CDS 40.0%
GTTGTGGAGGAAAAGGTCAT+TGG + chr6.4:11232218-11232237 MS.gene67983:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG + chr6.4:11232211-11232230 MS.gene67983:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG - chr6.4:11232251-11232270 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 11232154 11232453 11232154 ID=MS.gene67983
chr6.4 mRNA 11232154 11232453 11232154 ID=MS.gene67983.t1;Parent=MS.gene67983
chr6.4 exon 11232154 11232453 11232154 ID=MS.gene67983.t1.exon1;Parent=MS.gene67983.t1
chr6.4 CDS 11232154 11232453 11232154 ID=cds.MS.gene67983.t1;Parent=MS.gene67983.t1
Gene Sequence

>MS.gene67983

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTAACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACGCACTTTGCATGCGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTGATCCTGATGAAAAGATTGACCATCTCATTAGAGATGAAAATATCCAGGAATAG
Protein sequence

>MS.gene67983.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLNQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE