AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene032141

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032141.t1 MTR_2g098560 96.269 134 5 0 1 134 1 134 3.84e-89 255
MS.gene032141.t1 MTR_7g092970 57.246 138 53 4 1 134 1 136 1.08e-38 127
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032141.t1 AT3G57930 53.147 143 52 5 1 133 1 138 2.76e-29 103
MS.gene032141.t1 AT3G57930 53.147 143 52 5 1 133 1 138 2.76e-29 103
MS.gene032141.t1 AT2G42190 48.201 139 65 3 1 133 1 138 1.62e-23 89.4
MS.gene032141.t1 AT2G42190 48.201 139 65 3 1 133 1 138 1.62e-23 89.4
MS.gene032141.t1 AT2G42190 48.201 139 65 3 1 133 1 138 1.62e-23 89.4

Find 28 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGTCAAAGTCGTCCTTTAC+CGG 0.288385 2.1:-5788108 None:intergenic
CAGCGAAATCCAATGGATTT+AGG 0.362932 2.1:+5788310 MS.gene032141:CDS
ATGGGTAGAGGTAGAGGAAA+GGG 0.421104 2.1:+5787994 MS.gene032141:CDS
GATTCAGCTGAGGAAGAAAA+TGG 0.422625 2.1:+5788258 MS.gene032141:CDS
TCCGTTATGCCTAAATCCAT+TGG 0.436331 2.1:-5788319 None:intergenic
CAGCAGAACTTGCAAGGAAA+AGG 0.444441 2.1:+5788205 MS.gene032141:CDS
CTCCGCTTACAGTGTCGTCT+TGG 0.444924 2.1:-5788038 None:intergenic
AAGAGGGAGACCACAGAAAC+CGG 0.451752 2.1:+5788089 MS.gene032141:CDS
CTTGCAAGTTCTGCTGCTGT+AGG 0.470856 2.1:-5788198 None:intergenic
AATATCATGGGTAGAGGTAG+AGG 0.478296 2.1:+5787988 None:intergenic
CCTCGTAGAGCTGCTGAAGC+TGG 0.484805 2.1:+5788360 MS.gene032141:CDS
GACAGTGAGAATGTTAAGAA+TGG 0.485544 2.1:+5788150 MS.gene032141:CDS
GTTCCAATACAGAAGAAAAG+AGG 0.492864 2.1:+5788072 MS.gene032141:CDS
CTGACTCCTCTGTGCTTGAT+CGG 0.502660 2.1:-5788290 None:intergenic
TCCAATGGATTTAGGCATAA+CGG 0.518583 2.1:+5788318 MS.gene032141:CDS
TCGTCCTTTACCGGTTTCTG+TGG 0.538924 2.1:-5788099 None:intergenic
GAGGAGTCAGCGAAATCCAA+TGG 0.541722 2.1:+5788303 MS.gene032141:CDS
TTCCAATACAGAAGAAAAGA+GGG 0.543516 2.1:+5788073 MS.gene032141:CDS
CATGGGTAGAGGTAGAGGAA+AGG 0.551133 2.1:+5787993 None:intergenic
TGTAAGCGGAGAAGATGAAA+AGG 0.565907 2.1:+5788050 MS.gene032141:CDS
GAAAAGGAAAAGAAACTCAC+AGG 0.566451 2.1:+5788221 MS.gene032141:CDS
GCTGAGGAAGAAAATGGCGT+TGG 0.572860 2.1:+5788264 MS.gene032141:CDS
GAGACCACAGAAACCGGTAA+AGG 0.577992 2.1:+5788095 MS.gene032141:CDS
CTACAGCAGCAGAACTTGCA+AGG 0.583011 2.1:+5788199 MS.gene032141:CDS
AACCAAGACGACACTGTAAG+CGG 0.632408 2.1:+5788036 MS.gene032141:CDS
AGAGAAGTTAGATTCAGCTG+AGG 0.635071 2.1:+5788248 MS.gene032141:CDS
CCAGCTTCAGCAGCTCTACG+AGG 0.704470 2.1:-5788360 None:intergenic
TGGAAGCCGATCAAGCACAG+AGG 0.757729 2.1:+5788284 MS.gene032141:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTCCAATACAGAAGAAAAGA+GGG + chr2.1:5788073-5788092 MS.gene032141:CDS 30.0%
GAAAAGGAAAAGAAACTCAC+AGG + chr2.1:5788221-5788240 MS.gene032141:CDS 35.0%
GACAGTGAGAATGTTAAGAA+TGG + chr2.1:5788150-5788169 MS.gene032141:CDS 35.0%
GTTCCAATACAGAAGAAAAG+AGG + chr2.1:5788072-5788091 MS.gene032141:CDS 35.0%
! TCCAATGGATTTAGGCATAA+CGG + chr2.1:5788318-5788337 MS.gene032141:CDS 35.0%
AGAGAAGTTAGATTCAGCTG+AGG + chr2.1:5788248-5788267 MS.gene032141:CDS 40.0%
GATTCAGCTGAGGAAGAAAA+TGG + chr2.1:5788258-5788277 MS.gene032141:CDS 40.0%
TCCGTTATGCCTAAATCCAT+TGG - chr2.1:5788322-5788341 None:intergenic 40.0%
TGTAAGCGGAGAAGATGAAA+AGG + chr2.1:5788050-5788069 MS.gene032141:CDS 40.0%
! CAGCGAAATCCAATGGATTT+AGG + chr2.1:5788310-5788329 MS.gene032141:CDS 40.0%
! CTCCCTCTTTTCTTCTGTAT+TGG - chr2.1:5788078-5788097 None:intergenic 40.0%
AACCAAGACGACACTGTAAG+CGG + chr2.1:5788036-5788055 MS.gene032141:CDS 45.0%
ATGGGTAGAGGTAGAGGAAA+GGG + chr2.1:5787994-5788013 MS.gene032141:CDS 45.0%
CAGCAGAACTTGCAAGGAAA+AGG + chr2.1:5788205-5788224 MS.gene032141:CDS 45.0%
TCGTCAAAGTCGTCCTTTAC+CGG - chr2.1:5788111-5788130 None:intergenic 45.0%
AAGAGGGAGACCACAGAAAC+CGG + chr2.1:5788089-5788108 MS.gene032141:CDS 50.0%
CTACAGCAGCAGAACTTGCA+AGG + chr2.1:5788199-5788218 MS.gene032141:CDS 50.0%
CTGACTCCTCTGTGCTTGAT+CGG - chr2.1:5788293-5788312 None:intergenic 50.0%
CTTGCAAGTTCTGCTGCTGT+AGG - chr2.1:5788201-5788220 None:intergenic 50.0%
GAGACCACAGAAACCGGTAA+AGG + chr2.1:5788095-5788114 MS.gene032141:CDS 50.0%
GAGGAGTCAGCGAAATCCAA+TGG + chr2.1:5788303-5788322 MS.gene032141:CDS 50.0%
GCTGAGGAAGAAAATGGCGT+TGG + chr2.1:5788264-5788283 MS.gene032141:CDS 50.0%
!! TCGTCCTTTACCGGTTTCTG+TGG - chr2.1:5788102-5788121 None:intergenic 50.0%
CTCCGCTTACAGTGTCGTCT+TGG - chr2.1:5788041-5788060 None:intergenic 55.0%
TGGAAGCCGATCAAGCACAG+AGG + chr2.1:5788284-5788303 MS.gene032141:CDS 55.0%
CCAGCTTCAGCAGCTCTACG+AGG - chr2.1:5788363-5788382 None:intergenic 60.0%
CCTCGTAGAGCTGCTGAAGC+TGG + chr2.1:5788360-5788379 MS.gene032141:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 5787994 5788398 5787994 ID=MS.gene032141
chr2.1 mRNA 5787994 5788398 5787994 ID=MS.gene032141.t1;Parent=MS.gene032141
chr2.1 exon 5787994 5788398 5787994 ID=MS.gene032141.t1.exon1;Parent=MS.gene032141.t1
chr2.1 CDS 5787994 5788398 5787994 ID=cds.MS.gene032141.t1;Parent=MS.gene032141.t1
Gene Sequence

>MS.gene032141

ATGGGTAGAGGTAGAGGAAAGGGTAAAAAGCTAACTGTTACTAACCAAGACGACACTGTAAGCGGAGAAGATGAAAAGGTTCCAATACAGAAGAAAAGAGGGAGACCACAGAAACCGGTAAAGGACGACTTTGACGAAGAAGTTGAGAAAATAGTTGACAGTGAGAATGTTAAGAATGGAGTAACTCACAGAGAGATGAAAAGTCCTACAGCAGCAGAACTTGCAAGGAAAAGGAAAAGAAACTCACAGGTAAAAGAGAAGTTAGATTCAGCTGAGGAAGAAAATGGCGTTGGAAGCCGATCAAGCACAGAGGAGTCAGCGAAATCCAATGGATTTAGGCATAACGGAAGCAGACGCAAAAGCACGCCTCGTAGAGCTGCTGAAGCTGGTGTGCAGTGCCAGTAA
Protein sequence

>MS.gene032141.t1

MGRGRGKGKKLTVTNQDDTVSGEDEKVPIQKKRGRPQKPVKDDFDEEVEKIVDSENVKNGVTHREMKSPTAAELARKRKRNSQVKEKLDSAEEENGVGSRSSTEESAKSNGFRHNGSRRKSTPRRAAEAGVQCQ