AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480020922.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020922.01.T01 MTR_1g045470 70.652 92 27 0 1 92 1 92 2.79e-42 140
MsG0480020922.01.T01 MTR_7g116460 62.921 89 33 0 1 89 1 89 1.53e-38 127
MsG0480020922.01.T01 MTR_1g053575 59.783 92 28 3 1 90 1 85 5.53e-28 103
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 21 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTACAAATTTCTTCTTTA+AGG 0.109744 4:+50612145 None:intergenic
CAAAGAATCCATGGGAGATT+TGG 0.240318 4:-50612223 MsG0480020922.01.T01:CDS
CCTCAGCTCTTCTTCCAATA+AGG 0.293673 4:-50612357 MsG0480020922.01.T01:CDS
TGTGGGTGTGAAATCCTTAT+TGG 0.314067 4:+50612343 None:intergenic
TGGGAGATTTGGGAAGAGTT+TGG 0.336128 4:-50612212 MsG0480020922.01.T01:CDS
AAAGAATCCATGGGAGATTT+GGG 0.356440 4:-50612222 MsG0480020922.01.T01:CDS
TCACACATAGTTCGCACTAT+TGG 0.409614 4:-50612119 MsG0480020922.01.T01:CDS
CTGTAGAAGTTCCTCATTTG+TGG 0.410736 4:+50612325 None:intergenic
CACTATTGGACTTCGTAGAT+AGG 0.410950 4:-50612105 None:intergenic
TCAAGAAATGTGACATGATT+GGG 0.417918 4:+50612266 None:intergenic
TTAAGGTTGCAAAGAAGTAA+AGG 0.449624 4:+50612162 None:intergenic
TGTAGAAGTTCCTCATTTGT+GGG 0.450958 4:+50612326 None:intergenic
TTCAAGAAATGTGACATGAT+TGG 0.475334 4:+50612265 None:intergenic
AATCTCCCATGGATTCTTTG+TGG 0.476844 4:+50612226 None:intergenic
AACTCTTCCCAAATCTCCCA+TGG 0.530624 4:+50612215 None:intergenic
TCAGTACCACAAAGAATCCA+TGG 0.545685 4:-50612232 MsG0480020922.01.T01:CDS
GGAGCTTTCCACTCATACCA+TGG 0.550234 4:-50612191 MsG0480020922.01.T01:CDS
AATGTGACATGATTGGGCAA+AGG 0.592080 4:+50612272 None:intergenic
GGATTTCACACCCACAAATG+AGG 0.602018 4:-50612336 MsG0480020922.01.T01:CDS
CAGTACCACAAAGAATCCAT+GGG 0.640662 4:-50612231 MsG0480020922.01.T01:CDS
CCTTATTGGAAGAAGAGCTG+AGG 0.668121 4:+50612357 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGCTACAAATTTCTTCTTTA+AGG + Chr4:50612326-50612345 None:intergenic 25.0%
!! TGTTATGAATTTTACTGTAG+AGG + Chr4:50612174-50612193 None:intergenic 25.0%
TCAAGAAATGTGACATGATT+GGG + Chr4:50612205-50612224 None:intergenic 30.0%
TTAAGGTTGCAAAGAAGTAA+AGG + Chr4:50612309-50612328 None:intergenic 30.0%
TTCAAGAAATGTGACATGAT+TGG + Chr4:50612206-50612225 None:intergenic 30.0%
AAAGAATCCATGGGAGATTT+GGG - Chr4:50612246-50612265 MsG0480020922.01.T01:CDS 35.0%
TGTAGAAGTTCCTCATTTGT+GGG + Chr4:50612145-50612164 None:intergenic 35.0%
! AGAAGTAAAGGTCTTTTCCA+TGG + Chr4:50612297-50612316 None:intergenic 35.0%
AATCTCCCATGGATTCTTTG+TGG + Chr4:50612245-50612264 None:intergenic 40.0%
AATGTGACATGATTGGGCAA+AGG + Chr4:50612199-50612218 None:intergenic 40.0%
CAAAGAATCCATGGGAGATT+TGG - Chr4:50612245-50612264 MsG0480020922.01.T01:CDS 40.0%
CAGTACCACAAAGAATCCAT+GGG - Chr4:50612237-50612256 MsG0480020922.01.T01:CDS 40.0%
CTGTAGAAGTTCCTCATTTG+TGG + Chr4:50612146-50612165 None:intergenic 40.0%
TCACACATAGTTCGCACTAT+TGG - Chr4:50612349-50612368 MsG0480020922.01.T01:CDS 40.0%
TCAGTACCACAAAGAATCCA+TGG - Chr4:50612236-50612255 MsG0480020922.01.T01:CDS 40.0%
TGTGGGTGTGAAATCCTTAT+TGG + Chr4:50612128-50612147 None:intergenic 40.0%
AACTCTTCCCAAATCTCCCA+TGG + Chr4:50612256-50612275 None:intergenic 45.0%
CCTCAGCTCTTCTTCCAATA+AGG - Chr4:50612111-50612130 MsG0480020922.01.T01:CDS 45.0%
CCTTATTGGAAGAAGAGCTG+AGG + Chr4:50612114-50612133 None:intergenic 45.0%
GGATTTCACACCCACAAATG+AGG - Chr4:50612132-50612151 MsG0480020922.01.T01:CDS 45.0%
TGGGAGATTTGGGAAGAGTT+TGG - Chr4:50612256-50612275 MsG0480020922.01.T01:CDS 45.0%
! GGTCTTTTCCATGGTATGAG+TGG + Chr4:50612288-50612307 None:intergenic 45.0%
GGAGCTTTCCACTCATACCA+TGG - Chr4:50612277-50612296 MsG0480020922.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr4 gene 50612106 50612384 50612106 ID=MsG0480020922.01;Name=MsG0480020922.01
Chr4 mRNA 50612106 50612384 50612106 ID=MsG0480020922.01.T01;Parent=MsG0480020922.01;Name=MsG0480020922.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|92
Chr4 exon 50612106 50612384 50612106 ID=MsG0480020922.01.T01:exon:57561;Parent=MsG0480020922.01.T01
Chr4 CDS 50612106 50612384 50612106 ID=MsG0480020922.01.T01:cds;Parent=MsG0480020922.01.T01
Gene Sequence

>MsG0480020922.01.T01

ATGGTCCTCAGCTCTTCTTCCAATAAGGATTTCACACCCACAAATGAGGAACTTCTACAGCTATTCCTCTACAGTAAAATTCATAACAAACCTTTGCCCAATCATGTCACATTTCTTGAATACAATTTGTTCAGTACCACAAAGAATCCATGGGAGATTTGGGAAGAGTTTGGAGCTTTCCACTCATACCATGGAAAAGACCTTTACTTCTTTGCAACCTTAAAGAAGAAATTTGTAGCTAGCTCACACATAGTTCGCACTATTGGACTTCGTAGATAG
Protein sequence

>MsG0480020922.01.T01

MVLSSSSNKDFTPTNEELLQLFLYSKIHNKPLPNHVTFLEYNLFSTTKNPWEIWEEFGAFHSYHGKDLYFFATLKKKFVASSHIVRTIGLRR*