AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67985

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67985.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:+11262053 MS.gene67985:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 6.4:+11262045 MS.gene67985:CDS
TATAGGTGGGGTTCTATTCC+TGG 0.331534 6.4:-11262207 None:intergenic
TAAAGATCAACAAGATGTTT+TGG 0.333763 6.4:-11262022 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 6.4:+11262105 MS.gene67985:CDS
GAAAATGATGAAGATGATTA+TGG 0.391347 6.4:+11262097 MS.gene67985:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 6.4:+11261974 MS.gene67985:CDS
AGAAATCAGCAGCATCTAAG+TGG 0.464577 6.4:-11262135 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 6.4:+11261923 MS.gene67985:CDS
ACTTCAAAATAAGGATAAAA+GGG 0.487291 6.4:+11262054 MS.gene67985:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 6.4:+11261981 MS.gene67985:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 6.4:+11262189 MS.gene67985:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 6.4:+11261965 MS.gene67985:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 6.4:+11261968 MS.gene67985:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 6.4:-11262134 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG + chr6.4:11261923-11261942 MS.gene67985:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG + chr6.4:11262054-11262073 MS.gene67985:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG + chr6.4:11262053-11262072 MS.gene67985:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG + chr6.4:11262097-11262116 MS.gene67985:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG + chr6.4:11262105-11262124 MS.gene67985:CDS 25.0%
!! TAAAGATCAACAAGATGTTT+TGG - chr6.4:11262025-11262044 None:intergenic 25.0%
!! TATTTTCATCTCTAATGAGA+TGG - chr6.4:11262186-11262205 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG + chr6.4:11262189-11262208 MS.gene67985:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG + chr6.4:11262045-11262064 MS.gene67985:CDS 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG - chr6.4:11262048-11262067 None:intergenic 30.0%
! AGATGGTCAATCTTTTCATC+AGG - chr6.4:11262169-11262188 None:intergenic 35.0%
AGAAATCAGCAGCATCTAAG+TGG - chr6.4:11262138-11262157 None:intergenic 40.0%
GAAATCAGCAGCATCTAAGT+GGG - chr6.4:11262137-11262156 None:intergenic 40.0%
!! AGTATTTGCTATCGTTGTGG+AGG + chr6.4:11261968-11261987 MS.gene67985:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG + chr6.4:11261965-11261984 MS.gene67985:CDS 40.0%
GTTGTGGAGGAAAAGGTCAT+TGG + chr6.4:11261981-11262000 MS.gene67985:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG + chr6.4:11261974-11261993 MS.gene67985:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG - chr6.4:11262014-11262033 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 11261917 11262216 11261917 ID=MS.gene67985
chr6.4 mRNA 11261917 11262216 11261917 ID=MS.gene67985.t1;Parent=MS.gene67985
chr6.4 exon 11261917 11262216 11261917 ID=MS.gene67985.t1.exon1;Parent=MS.gene67985.t1
chr6.4 CDS 11261917 11262216 11261917 ID=cds.MS.gene67985.t1;Parent=MS.gene67985.t1
Gene Sequence

>MS.gene67985

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACGCACTTTGCATGCGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTGATCCTGATGAAAAGATTGACCATCTCATTAGAGATGAAAATATCCAGGAATAG
Protein sequence

>MS.gene67985.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE