AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene23923


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23923.t1 MTR_3g110640 97.115 104 3 0 1 104 1 104 1.85e-69 202
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23923.t1 AT5G17870 49.474 95 45 2 3 94 2 96 7.89e-23 85.1
MS.gene23923.t1 AT5G17870 49.474 95 45 2 3 94 25 119 1.89e-22 85.1

Find 27 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTTCTTTCTCAATGAATT+TGG 0.155637 3.1:-88520049 None:intergenic
TCATCGGTGTCAAGCATATT+CGG 0.397952 3.1:+88520007 MS.gene23923:CDS
TCATTGAGAAAGAAAGCAAT+TGG 0.425202 3.1:+88520055 MS.gene23923:CDS
GAAATGACAATTGTAAAATC+AGG 0.433333 3.1:-88520238 None:intergenic
CATCACTGTCGGATAGGAAT+CGG 0.473566 3.1:+88520179 MS.gene23923:CDS
TGTCAAGCATATTCGGATGC+GGG 0.490823 3.1:+88520014 MS.gene23923:CDS
AAGGTACCAAATCAAGTAGA+AGG 0.494390 3.1:-88520307 None:intergenic
AGAAAGCAATTGGAATTGAA+AGG 0.494556 3.1:+88520065 MS.gene23923:CDS
GTAGAAGGAGTAGGAGGCGG+AGG 0.503700 3.1:-88520292 None:intergenic
TGTGCAGTTGCTTTCTTCTG+TGG 0.507932 3.1:-88520130 None:intergenic
GGCAAAGGAGCATACTCTGT+TGG 0.555146 3.1:-88520205 None:intergenic
TCAGGAGGCAGTGGTGGCAA+AGG 0.562798 3.1:-88520220 None:intergenic
CCAAATCAAGTAGAAGGAGT+AGG 0.568811 3.1:-88520301 None:intergenic
ATTGTAAAATCAGGAGGCAG+TGG 0.573977 3.1:-88520229 None:intergenic
GTGTCAAGCATATTCGGATG+CGG 0.575890 3.1:+88520013 MS.gene23923:CDS
CAAGTAGAAGGAGTAGGAGG+CGG 0.578017 3.1:-88520295 None:intergenic
TGATGCATCATCAACGGCCA+CGG 0.584871 3.1:+88520264 MS.gene23923:CDS
TTCTGCTGATGCATCATCAA+CGG 0.592398 3.1:+88520258 MS.gene23923:CDS
GTCAAGCATATTCGGATGCG+GGG 0.596492 3.1:+88520015 MS.gene23923:CDS
GTAAAATCAGGAGGCAGTGG+TGG 0.601246 3.1:-88520226 None:intergenic
AATCAAGTAGAAGGAGTAGG+AGG 0.618321 3.1:-88520298 None:intergenic
ATGACAATTGTAAAATCAGG+AGG 0.620980 3.1:-88520235 None:intergenic
GAAAGGAGAAATGTATGTGG+AGG 0.621499 3.1:+88520082 MS.gene23923:CDS
ATTGAAAGGAGAAATGTATG+TGG 0.642127 3.1:+88520079 MS.gene23923:CDS
CTGCACATCACATGAAGACG+AGG 0.645185 3.1:+88520146 MS.gene23923:CDS
AGGAGGCGGAGGAACAACCG+TGG 0.742635 3.1:-88520281 None:intergenic
TGTTGATAGAGTGTTCATCG+AGG 0.792218 3.1:+88520107 MS.gene23923:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GAAATGACAATTGTAAAATC+AGG - chr3.1:88520241-88520260 None:intergenic 25.0%
AGAAAGCAATTGGAATTGAA+AGG + chr3.1:88520065-88520084 MS.gene23923:CDS 30.0%
ATGACAATTGTAAAATCAGG+AGG - chr3.1:88520238-88520257 None:intergenic 30.0%
ATTGAAAGGAGAAATGTATG+TGG + chr3.1:88520079-88520098 MS.gene23923:CDS 30.0%
GCTTTCTTTCTCAATGAATT+TGG - chr3.1:88520052-88520071 None:intergenic 30.0%
TCATTGAGAAAGAAAGCAAT+TGG + chr3.1:88520055-88520074 MS.gene23923:CDS 30.0%
AAAAATCATCACTGTCGGAT+AGG + chr3.1:88520173-88520192 MS.gene23923:CDS 35.0%
!!! ATCCGACAGTGATGATTTTT+TGG - chr3.1:88520173-88520192 None:intergenic 35.0%
!!! TCCGACAGTGATGATTTTTT+GGG - chr3.1:88520172-88520191 None:intergenic 35.0%
ATTGTAAAATCAGGAGGCAG+TGG - chr3.1:88520232-88520251 None:intergenic 40.0%
GAAAGGAGAAATGTATGTGG+AGG + chr3.1:88520082-88520101 MS.gene23923:CDS 40.0%
GCCCAAAAAATCATCACTGT+CGG + chr3.1:88520168-88520187 MS.gene23923:CDS 40.0%
TTCTGCTGATGCATCATCAA+CGG + chr3.1:88520258-88520277 MS.gene23923:CDS 40.0%
! TGTTGATAGAGTGTTCATCG+AGG + chr3.1:88520107-88520126 MS.gene23923:CDS 40.0%
!! TCATCGGTGTCAAGCATATT+CGG + chr3.1:88520007-88520026 MS.gene23923:CDS 40.0%
CATCACTGTCGGATAGGAAT+CGG + chr3.1:88520179-88520198 MS.gene23923:CDS 45.0%
GTGTCAAGCATATTCGGATG+CGG + chr3.1:88520013-88520032 MS.gene23923:CDS 45.0%
TGTCAAGCATATTCGGATGC+GGG + chr3.1:88520014-88520033 MS.gene23923:CDS 45.0%
! TGTGCAGTTGCTTTCTTCTG+TGG - chr3.1:88520133-88520152 None:intergenic 45.0%
CAAGTAGAAGGAGTAGGAGG+CGG - chr3.1:88520298-88520317 None:intergenic 50.0%
CTGCACATCACATGAAGACG+AGG + chr3.1:88520146-88520165 MS.gene23923:CDS 50.0%
GTAAAATCAGGAGGCAGTGG+TGG - chr3.1:88520229-88520248 None:intergenic 50.0%
GTCAAGCATATTCGGATGCG+GGG + chr3.1:88520015-88520034 MS.gene23923:CDS 50.0%
TGATGCATCATCAACGGCCA+CGG + chr3.1:88520264-88520283 MS.gene23923:CDS 50.0%
! GGCAAAGGAGCATACTCTGT+TGG - chr3.1:88520208-88520227 None:intergenic 50.0%
GTAGAAGGAGTAGGAGGCGG+AGG - chr3.1:88520295-88520314 None:intergenic 60.0%
TCAGGAGGCAGTGGTGGCAA+AGG - chr3.1:88520223-88520242 None:intergenic 60.0%
AGGAGGCGGAGGAACAACCG+TGG - chr3.1:88520284-88520303 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 88520004 88520318 88520004 ID=MS.gene23923
chr3.1 mRNA 88520004 88520318 88520004 ID=MS.gene23923.t1;Parent=MS.gene23923
chr3.1 exon 88520004 88520318 88520004 ID=MS.gene23923.t1.exon1;Parent=MS.gene23923.t1
chr3.1 CDS 88520004 88520318 88520004 ID=cds.MS.gene23923.t1;Parent=MS.gene23923.t1
Gene Sequence

>MS.gene23923

ATGTCATCGGTGTCAAGCATATTCGGATGCGGGGTTTCGATTGCGCCAAATTCATTGAGAAAGAAAGCAATTGGAATTGAAAGGAGAAATGTATGTGGAGGATTGTTGATAGAGTGTTCATCGAGGCCACAGAAGAAAGCAACTGCACATCACATGAAGACGAGGCCCAAAAAATCATCACTGTCGGATAGGAATCGGAAACCAACAGAGTATGCTCCTTTGCCACCACTGCCTCCTGATTTTACAATTGTCATTTCTGCTGATGCATCATCAACGGCCACGGTTGTTCCTCCGCCTCCTACTCCTTCTACTTGA

Protein sequence

>MS.gene23923.t1

MSSVSSIFGCGVSIAPNSLRKKAIGIERRNVCGGLLIECSSRPQKKATAHHMKTRPKKSSLSDRNRKPTEYAPLPPLPPDFTIVISADASSTATVVPPPPTPST