AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017703.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017703.01.T01 MTR_3g110640 97.115 104 3 0 1 104 1 104 1.92e-69 202
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017703.01.T01 AT5G17870 49.474 95 45 2 3 94 2 96 8.19e-23 85.1
MsG0380017703.01.T01 AT5G17870 49.474 95 45 2 3 94 25 119 1.96e-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:-99768047 None:intergenic
TCGTCGGTGTCAAGCATATT+CGG 0.370597 3:+99768005 MsG0380017703.01.T01:CDS
TCATTGAGAAAGAAAGCAAT+TGG 0.425202 3:+99768053 MsG0380017703.01.T01:CDS
GAAATGACAATTGTAAAATC+AGG 0.433333 3:-99768236 None:intergenic
CATCACTGTCGGATAGGAAT+CGG 0.473566 3:+99768177 MsG0380017703.01.T01:CDS
TGTCAAGCATATTCGGATGC+GGG 0.490823 3:+99768012 MsG0380017703.01.T01:CDS
AAGGTACCAAATCAAGTAGA+AGG 0.494390 3:-99768305 None:intergenic
AGAAAGCAATTGGAATTGAA+AGG 0.494556 3:+99768063 MsG0380017703.01.T01:CDS
GTAGAAGGAGTAGGAGGCGG+AGG 0.503700 3:-99768290 None:intergenic
TGTGCAGTTGCTTTCTTCTG+TGG 0.507932 3:-99768128 None:intergenic
GTGTCAAGCATATTCGGATG+CGG 0.540271 3:+99768011 MsG0380017703.01.T01:CDS
GGCAAAGGAGCATACTCTGT+TGG 0.555146 3:-99768203 None:intergenic
TCAGGAGGCAGTGGTGGCAA+AGG 0.562798 3:-99768218 None:intergenic
CCAAATCAAGTAGAAGGAGT+AGG 0.568811 3:-99768299 None:intergenic
ATTGTAAAATCAGGAGGCAG+TGG 0.573977 3:-99768227 None:intergenic
CAAGTAGAAGGAGTAGGAGG+CGG 0.578017 3:-99768293 None:intergenic
TGATGCATCATCAACGGCCA+CGG 0.584871 3:+99768262 MsG0380017703.01.T01:CDS
TTCTGCTGATGCATCATCAA+CGG 0.592398 3:+99768256 MsG0380017703.01.T01:CDS
GTCAAGCATATTCGGATGCG+GGG 0.596492 3:+99768013 MsG0380017703.01.T01:CDS
GTAAAATCAGGAGGCAGTGG+TGG 0.601246 3:-99768224 None:intergenic
AATCAAGTAGAAGGAGTAGG+AGG 0.618321 3:-99768296 None:intergenic
ATGACAATTGTAAAATCAGG+AGG 0.620980 3:-99768233 None:intergenic
GAAAGGAGAAATGTATGTGG+AGG 0.621499 3:+99768080 MsG0380017703.01.T01:CDS
ATTGAAAGGAGAAATGTATG+TGG 0.642127 3:+99768077 MsG0380017703.01.T01:CDS
CTGCACATCACATGAAGACG+AGG 0.645185 3:+99768144 MsG0380017703.01.T01:CDS
AGGAGGCGGAGGAACAACCG+TGG 0.742635 3:-99768279 None:intergenic
TGTTGATAGAGTGTTCATCG+AGG 0.792218 3:+99768105 MsG0380017703.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GAAATGACAATTGTAAAATC+AGG - Chr3:99768239-99768258 None:intergenic 25.0%
AGAAAGCAATTGGAATTGAA+AGG + Chr3:99768063-99768082 MsG0380017703.01.T01:CDS 30.0%
ATGACAATTGTAAAATCAGG+AGG - Chr3:99768236-99768255 None:intergenic 30.0%
ATTGAAAGGAGAAATGTATG+TGG + Chr3:99768077-99768096 MsG0380017703.01.T01:CDS 30.0%
GCTTTCTTTCTCAATGAATT+TGG - Chr3:99768050-99768069 None:intergenic 30.0%
TCATTGAGAAAGAAAGCAAT+TGG + Chr3:99768053-99768072 MsG0380017703.01.T01:CDS 30.0%
AAAAATCATCACTGTCGGAT+AGG + Chr3:99768171-99768190 MsG0380017703.01.T01:CDS 35.0%
!!! ATCCGACAGTGATGATTTTT+TGG - Chr3:99768171-99768190 None:intergenic 35.0%
!!! TCCGACAGTGATGATTTTTT+GGG - Chr3:99768170-99768189 None:intergenic 35.0%
ATTGTAAAATCAGGAGGCAG+TGG - Chr3:99768230-99768249 None:intergenic 40.0%
GAAAGGAGAAATGTATGTGG+AGG + Chr3:99768080-99768099 MsG0380017703.01.T01:CDS 40.0%
GCCCAAAAAATCATCACTGT+CGG + Chr3:99768166-99768185 MsG0380017703.01.T01:CDS 40.0%
TTCTGCTGATGCATCATCAA+CGG + Chr3:99768256-99768275 MsG0380017703.01.T01:CDS 40.0%
! TGTTGATAGAGTGTTCATCG+AGG + Chr3:99768105-99768124 MsG0380017703.01.T01:CDS 40.0%
CATCACTGTCGGATAGGAAT+CGG + Chr3:99768177-99768196 MsG0380017703.01.T01:CDS 45.0%
GTGTCAAGCATATTCGGATG+CGG + Chr3:99768011-99768030 MsG0380017703.01.T01:CDS 45.0%
TGTCAAGCATATTCGGATGC+GGG + Chr3:99768012-99768031 MsG0380017703.01.T01:CDS 45.0%
! TGTGCAGTTGCTTTCTTCTG+TGG - Chr3:99768131-99768150 None:intergenic 45.0%
!! TCGTCGGTGTCAAGCATATT+CGG + Chr3:99768005-99768024 MsG0380017703.01.T01:CDS 45.0%
CAAGTAGAAGGAGTAGGAGG+CGG - Chr3:99768296-99768315 None:intergenic 50.0%
CTGCACATCACATGAAGACG+AGG + Chr3:99768144-99768163 MsG0380017703.01.T01:CDS 50.0%
GTAAAATCAGGAGGCAGTGG+TGG - Chr3:99768227-99768246 None:intergenic 50.0%
GTCAAGCATATTCGGATGCG+GGG + Chr3:99768013-99768032 MsG0380017703.01.T01:CDS 50.0%
TGATGCATCATCAACGGCCA+CGG + Chr3:99768262-99768281 MsG0380017703.01.T01:CDS 50.0%
! GGCAAAGGAGCATACTCTGT+TGG - Chr3:99768206-99768225 None:intergenic 50.0%
GTAGAAGGAGTAGGAGGCGG+AGG - Chr3:99768293-99768312 None:intergenic 60.0%
TCAGGAGGCAGTGGTGGCAA+AGG - Chr3:99768221-99768240 None:intergenic 60.0%
AGGAGGCGGAGGAACAACCG+TGG - Chr3:99768282-99768301 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 99768002 99768316 99768002 ID=MsG0380017703.01;Name=MsG0380017703.01
Chr3 mRNA 99768002 99768316 99768002 ID=MsG0380017703.01.T01;Parent=MsG0380017703.01;Name=MsG0380017703.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|104
Chr3 exon 99768002 99768316 99768002 ID=MsG0380017703.01.T01:exon:2287;Parent=MsG0380017703.01.T01
Chr3 CDS 99768002 99768316 99768002 ID=MsG0380017703.01.T01:cds;Parent=MsG0380017703.01.T01
Gene Sequence

>MsG0380017703.01.T01

ATGTCGTCGGTGTCAAGCATATTCGGATGCGGGGTTTCGATTGCGCCAAATTCATTGAGAAAGAAAGCAATTGGAATTGAAAGGAGAAATGTATGTGGAGGATTGTTGATAGAGTGTTCATCGAGGCCACAGAAGAAAGCAACTGCACATCACATGAAGACGAGGCCCAAAAAATCATCACTGTCGGATAGGAATCGGAAACCAACAGAGTATGCTCCTTTGCCACCACTGCCTCCTGATTTTACAATTGTCATTTCTGCTGATGCATCATCAACGGCCACGGTTGTTCCTCCGCCTCCTACTCCTTCTACTTGA

Protein sequence

>MsG0380017703.01.T01

MSSVSSIFGCGVSIAPNSLRKKAIGIERRNVCGGLLIECSSRPQKKATAHHMKTRPKKSSLSDRNRKPTEYAPLPPLPPDFTIVISADASSTATVVPPPPTPST*