AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46201

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46201.t1 MTR_4g068560 87.500 64 7 1 1 64 1 63 8.48e-33 107
MS.gene46201.t1 MTR_4g068453 65.625 64 18 2 1 64 1 60 1.06e-20 77.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 16 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATTGTAGAGGTATGGGTT+GGG 0.390310 4.2:-38168235 MS.gene46201:CDS
AGGCAACAGAGGTGTCTCTT+GGG 0.412772 4.2:+38168102 None:intergenic
TGGCTGCCATTGTAGAGGTA+TGG 0.433651 4.2:-38168241 MS.gene46201:CDS
GAGGCAACAGAGGTGTCTCT+TGG 0.459401 4.2:+38168101 None:intergenic
CATTGTAGAGGTATGGGTTG+GGG 0.470237 4.2:-38168234 MS.gene46201:CDS
GCCATTGTAGAGGTATGGGT+TGG 0.477069 4.2:-38168236 MS.gene46201:CDS
GGCAACAGAGGTGTCTCTTG+GGG 0.546169 4.2:+38168103 None:intergenic
GGCTGCCATTGTAGAGGTAT+GGG 0.559523 4.2:-38168240 MS.gene46201:CDS
AACAAAGGCTTGCTGTTGCT+AGG 0.594023 4.2:+38168182 None:intergenic
TGAAGAGTCAGAGGCAACAG+AGG 0.597712 4.2:+38168091 None:intergenic
ATTAATGGCTGCCATTGTAG+AGG 0.614505 4.2:-38168246 None:intergenic
TGACATAGTTGAAGAGTCAG+AGG 0.626699 4.2:+38168082 None:intergenic
CCCAACCCATACCTCTACAA+TGG 0.629283 4.2:+38168235 None:intergenic
CAAAACAAGAAGAAGAACGT+TGG 0.651156 4.2:-38168134 MS.gene46201:CDS
TGACTCTTCAACTATGTCAG+AGG 0.654740 4.2:-38168078 MS.gene46201:CDS
GCAACAGAGGTGTCTCTTGG+GGG 0.674229 4.2:+38168104 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CAAAACAAGAAGAAGAACGT+TGG - chr4.2:38168181-38168200 MS.gene46201:CDS 35.0%
! TTGTTTTCAAAAGCCGAACA+AGG - chr4.2:38168151-38168170 MS.gene46201:CDS 35.0%
!! TGTTCGGCTTTTGAAAACAA+AGG + chr4.2:38168151-38168170 None:intergenic 35.0%
TGACATAGTTGAAGAGTCAG+AGG + chr4.2:38168236-38168255 None:intergenic 40.0%
TGACTCTTCAACTATGTCAG+AGG - chr4.2:38168237-38168256 MS.gene46201:CDS 40.0%
! CATTGTAGAGGTATGGGTTG+GGG - chr4.2:38168081-38168100 MS.gene46201:CDS 45.0%
! CCATTGTAGAGGTATGGGTT+GGG - chr4.2:38168080-38168099 MS.gene46201:CDS 45.0%
!! AACAAAGGCTTGCTGTTGCT+AGG + chr4.2:38168136-38168155 None:intergenic 45.0%
!! GTTTTGATCTGCGCCTTGTT+CGG + chr4.2:38168167-38168186 None:intergenic 45.0%
CCCAACCCATACCTCTACAA+TGG + chr4.2:38168083-38168102 None:intergenic 50.0%
TACCTCTACAATGGCAGCCA+TGG + chr4.2:38168074-38168093 None:intergenic 50.0%
TGAAGAGTCAGAGGCAACAG+AGG + chr4.2:38168227-38168246 None:intergenic 50.0%
TGGCTGCCATTGTAGAGGTA+TGG - chr4.2:38168074-38168093 MS.gene46201:CDS 50.0%
! GCCATTGTAGAGGTATGGGT+TGG - chr4.2:38168079-38168098 MS.gene46201:CDS 50.0%
! GGCTGCCATTGTAGAGGTAT+GGG - chr4.2:38168075-38168094 MS.gene46201:CDS 50.0%
!! AGGCAACAGAGGTGTCTCTT+GGG + chr4.2:38168216-38168235 None:intergenic 50.0%
!! GAGGCAACAGAGGTGTCTCT+TGG + chr4.2:38168217-38168236 None:intergenic 55.0%
!! GCAACAGAGGTGTCTCTTGG+GGG + chr4.2:38168214-38168233 None:intergenic 55.0%
!! GGCAACAGAGGTGTCTCTTG+GGG + chr4.2:38168215-38168234 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 38168073 38168264 38168073 ID=MS.gene46201
chr4.2 mRNA 38168073 38168264 38168073 ID=MS.gene46201.t1;Parent=MS.gene46201
chr4.2 exon 38168073 38168264 38168073 ID=MS.gene46201.t1.exon1;Parent=MS.gene46201.t1
chr4.2 CDS 38168073 38168264 38168073 ID=cds.MS.gene46201.t1;Parent=MS.gene46201.t1
Gene Sequence

>MS.gene46201

ATGGCTGCCATTGTAGAGGTATGGGTTGGGGAGCTAACAAAGCTCAGAGAAAAAGTTCTTCCTAGCAACAGCAAGCCTTTGTTTTCAAAAGCCGAACAAGGCGCAGATCAAAACAAGAAGAAGAACGTTGGTGTTCTTCCCCCAAGAGACACCTCTGTTGCCTCTGACTCTTCAACTATGTCAGAGGCAACC
Protein sequence

>MS.gene46201.t1

MAAIVEVWVGELTKLREKVLPSNSKPLFSKAEQGADQNKKKNVGVLPPRDTSVASDSSTMSEAT