AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36310

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36310.t1 MTR_2g101900 100.000 94 0 0 1 94 1 94 4.84e-64 188
MS.gene36310.t1 MTR_0147s0070 96.809 94 3 0 1 94 1 94 1.38e-62 184
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36310.t1 AT3G16080 88.298 94 11 0 1 94 1 94 7.27e-57 170
MS.gene36310.t1 AT1G52300 88.298 94 11 0 1 94 1 94 1.73e-56 169
MS.gene36310.t1 AT1G15250 87.234 94 12 0 1 94 1 94 9.08e-56 167
MS.gene36310.t1 AT1G15250 87.234 94 12 0 1 94 1 94 9.08e-56 167
MS.gene36310.t1 AT3G16080 93.333 45 3 0 1 45 1 45 9.58e-25 89.0

Find 28 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTAAAACCGCTCTTGAAT+CGG 0.373242 2.2:-1872050 None:intergenic
AAGCGGAGCATCTACTCTTC+TGG 0.402579 2.2:-1871828 None:intergenic
CTTACCCAGCTGCTCGTGTT+AGG 0.412584 2.2:+1871854 MS.gene36310:CDS
CATTTCCTAACACGAGCAGC+TGG 0.431351 2.2:-1871859 None:intergenic
GAATTGTAGGGTAAGGGAAC+TGG 0.450991 2.2:+1871736 MS.gene36310:intron
CGTAGAAAGACTACTGGAAC+TGG 0.453204 2.2:+1871997 MS.gene36310:CDS
TTTAGATAACTGGAGTGAAA+AGG 0.467360 2.2:+1871969 MS.gene36310:intron
CAGTTCCAGTAGTCTTTCTA+CGG 0.470228 2.2:-1871996 None:intergenic
AGACTCACACACTCTGTGTC+AGG 0.478990 2.2:+1871782 MS.gene36310:CDS
GGTAAGGGAACTGGAAGTTT+CGG 0.493117 2.2:+1871745 MS.gene36310:CDS
GAACTGGAAGTTTCGGTAAG+AGG 0.503126 2.2:+1871752 MS.gene36310:CDS
TGAAGCTGCACCTAGGAAGA+AGG 0.512832 2.2:+1872178 MS.gene36310:CDS
AGCATCTACTCTTCTGGAGA+TGG 0.532321 2.2:-1871822 None:intergenic
GCAATCCGTAGAAAGACTAC+TGG 0.532707 2.2:+1871991 MS.gene36310:CDS
GTGAATGAATTGTAGGGTAA+GGG 0.556316 2.2:+1871730 MS.gene36310:intron
GACGCAGCTCCCTTCTTCCT+AGG 0.557312 2.2:-1872188 None:intergenic
AGCAGCTGGGTAAGCACAAG+CGG 0.557462 2.2:-1871845 None:intergenic
GAAGCTGCACCTAGGAAGAA+GGG 0.598975 2.2:+1872179 MS.gene36310:CDS
CTACTGGAACTGGTAGGATG+AGG 0.613944 2.2:+1872007 MS.gene36310:CDS
CAGGAACTGAAGCTGCACCT+AGG 0.634185 2.2:+1872171 MS.gene36310:intron
ATTTCCTAACACGAGCAGCT+GGG 0.638199 2.2:-1871858 None:intergenic
CACACACTCTGTGTCAGGTG+CGG 0.644929 2.2:+1871787 MS.gene36310:CDS
GAAAGACTACTGGAACTGGT+AGG 0.653500 2.2:+1872001 MS.gene36310:CDS
CTGGAAGTTTCGGTAAGAGG+AGG 0.659557 2.2:+1871755 MS.gene36310:CDS
TCTGGAGATGGAAACTGCGG+CGG 0.666717 2.2:-1871810 None:intergenic
TCTTCTGGAGATGGAAACTG+CGG 0.675301 2.2:-1871813 None:intergenic
GTTCCTCGCCGATTCAAGAG+CGG 0.676604 2.2:+1872042 MS.gene36310:CDS
AAACCGCTCTTGAATCGGCG+AGG 0.683649 2.2:-1872045 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GTTAATTTGATTTGTAATTA+GGG + chr2.2:1871901-1871920 MS.gene36310:intron 15.0%
!!! TGTTAATTTGATTTGTAATT+AGG + chr2.2:1871900-1871919 MS.gene36310:intron 15.0%
!!! GATTATTGATTTTAGATAAC+TGG + chr2.2:1871959-1871978 MS.gene36310:intron 20.0%
! AATTAGGGTTTATGTATGTT+TGG + chr2.2:1871916-1871935 MS.gene36310:intron 25.0%
!! ATTAGATTGATGATAGATGA+AGG - chr2.2:1871669-1871688 None:intergenic 25.0%
!!! GTTGTGGTTTTTTTTAATAC+AGG + chr2.2:1872152-1872171 MS.gene36310:intron 25.0%
CCACAACATATCAATGATTA+AGG - chr2.2:1872139-1872158 None:intergenic 30.0%
CCTTAATCATTGATATGTTG+TGG + chr2.2:1872136-1872155 MS.gene36310:intron 30.0%
GTTCATGTGAATGAATTGTA+GGG + chr2.2:1871724-1871743 MS.gene36310:intron 30.0%
TGTTCATGTGAATGAATTGT+AGG + chr2.2:1871723-1871742 MS.gene36310:intron 30.0%
TTTAGATAACTGGAGTGAAA+AGG + chr2.2:1871969-1871988 MS.gene36310:intron 30.0%
GTGAATGAATTGTAGGGTAA+GGG + chr2.2:1871730-1871749 MS.gene36310:intron 35.0%
TGTGAATGAATTGTAGGGTA+AGG + chr2.2:1871729-1871748 MS.gene36310:intron 35.0%
! AGATTGATGATAGATGAAGG+AGG - chr2.2:1871666-1871685 None:intergenic 35.0%
CAGTTCCAGTAGTCTTTCTA+CGG - chr2.2:1871999-1872018 None:intergenic 40.0%
CTATACGATGTCGTATATGC+TGG + chr2.2:1871689-1871708 MS.gene36310:intron 40.0%
!! CTCTAAAACCGCTCTTGAAT+CGG - chr2.2:1872053-1872072 None:intergenic 40.0%
!!! ATTCAAGAGCGGTTTTAGAG+AGG + chr2.2:1872053-1872072 MS.gene36310:CDS 40.0%
!!! TTCAAGAGCGGTTTTAGAGA+GGG + chr2.2:1872054-1872073 MS.gene36310:CDS 40.0%
ATTTCCTAACACGAGCAGCT+GGG - chr2.2:1871861-1871880 None:intergenic 45.0%
CGTAGAAAGACTACTGGAAC+TGG + chr2.2:1871997-1872016 MS.gene36310:CDS 45.0%
GAAAGACTACTGGAACTGGT+AGG + chr2.2:1872001-1872020 MS.gene36310:CDS 45.0%
GAACTGGAAGTTTCGGTAAG+AGG + chr2.2:1871752-1871771 MS.gene36310:CDS 45.0%
GAATTGTAGGGTAAGGGAAC+TGG + chr2.2:1871736-1871755 MS.gene36310:intron 45.0%
GCAATCCGTAGAAAGACTAC+TGG + chr2.2:1871991-1872010 MS.gene36310:CDS 45.0%
GGTAAGGGAACTGGAAGTTT+CGG + chr2.2:1871745-1871764 MS.gene36310:CDS 45.0%
! AGCATCTACTCTTCTGGAGA+TGG - chr2.2:1871825-1871844 None:intergenic 45.0%
! TCTTCTGGAGATGGAAACTG+CGG - chr2.2:1871816-1871835 None:intergenic 45.0%
AGACTCACACACTCTGTGTC+AGG + chr2.2:1871782-1871801 MS.gene36310:CDS 50.0%
CATTTCCTAACACGAGCAGC+TGG - chr2.2:1871862-1871881 None:intergenic 50.0%
CTACTGGAACTGGTAGGATG+AGG + chr2.2:1872007-1872026 MS.gene36310:CDS 50.0%
CTGGAAGTTTCGGTAAGAGG+AGG + chr2.2:1871755-1871774 MS.gene36310:CDS 50.0%
GAAGCTGCACCTAGGAAGAA+GGG + chr2.2:1872179-1872198 MS.gene36310:CDS 50.0%
TGAAGCTGCACCTAGGAAGA+AGG + chr2.2:1872178-1872197 MS.gene36310:CDS 50.0%
! AAGCGGAGCATCTACTCTTC+TGG - chr2.2:1871831-1871850 None:intergenic 50.0%
AAACCGCTCTTGAATCGGCG+AGG - chr2.2:1872048-1872067 None:intergenic 55.0%
AGCAGCTGGGTAAGCACAAG+CGG - chr2.2:1871848-1871867 None:intergenic 55.0%
CACACACTCTGTGTCAGGTG+CGG + chr2.2:1871787-1871806 MS.gene36310:CDS 55.0%
CAGGAACTGAAGCTGCACCT+AGG + chr2.2:1872171-1872190 MS.gene36310:intron 55.0%
CTTACCCAGCTGCTCGTGTT+AGG + chr2.2:1871854-1871873 MS.gene36310:CDS 55.0%
TCTGGAGATGGAAACTGCGG+CGG - chr2.2:1871813-1871832 None:intergenic 55.0%
!! GTTCCTCGCCGATTCAAGAG+CGG + chr2.2:1872042-1872061 MS.gene36310:CDS 55.0%
GACGCAGCTCCCTTCTTCCT+AGG - chr2.2:1872191-1872210 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 1871647 1872217 1871647 ID=MS.gene36310
chr2.2 mRNA 1871647 1872217 1871647 ID=MS.gene36310.t1;Parent=MS.gene36310
chr2.2 exon 1871647 1871649 1871647 ID=MS.gene36310.t1.exon1;Parent=MS.gene36310.t1
chr2.2 CDS 1871647 1871649 1871647 ID=cds.MS.gene36310.t1;Parent=MS.gene36310.t1
chr2.2 exon 1871745 1871880 1871745 ID=MS.gene36310.t1.exon2;Parent=MS.gene36310.t1
chr2.2 CDS 1871745 1871880 1871745 ID=cds.MS.gene36310.t1;Parent=MS.gene36310.t1
chr2.2 exon 1871974 1872075 1871974 ID=MS.gene36310.t1.exon3;Parent=MS.gene36310.t1
chr2.2 CDS 1871974 1872075 1871974 ID=cds.MS.gene36310.t1;Parent=MS.gene36310.t1
chr2.2 exon 1872174 1872217 1872174 ID=MS.gene36310.t1.exon4;Parent=MS.gene36310.t1
chr2.2 CDS 1872174 1872217 1872174 ID=cds.MS.gene36310.t1;Parent=MS.gene36310.t1
Gene Sequence

>MS.gene36310

ATGGTAACATCTTCTTCCTCCTTCATCTATCATCAATCTAATCTATACGATGTCGTATATGCTGGTTAGACTAACATGTTCATGTGAATGAATTGTAGGGTAAGGGAACTGGAAGTTTCGGTAAGAGGAGGAACAAGACTCACACACTCTGTGTCAGGTGCGGCCGCCGCAGTTTCCATCTCCAGAAGAGTAGATGCTCCGCTTGTGCTTACCCAGCTGCTCGTGTTAGGAAATGTAATTAGTCTTAATCTATTGTTAATTTGATTTGTAATTAGGGTTTATGTATGTTTGGTTTATTAATTAATTCATTTTGATTATTGATTTTAGATAACTGGAGTGAAAAGGCAATCCGTAGAAAGACTACTGGAACTGGTAGGATGAGGTACTTGCGCAACGTTCCTCGCCGATTCAAGAGCGGTTTTAGAGAGGGTAATTAATCTTTTTCTAGCTTAATATGTTCGATTTAGTTTCTTAAGATTCAGTTTAGATCCTTAATCATTGATATGTTGTGGTTTTTTTTAATACAGGAACTGAAGCTGCACCTAGGAAGAAGGGAGCTGCGTCTGCTTAA
Protein sequence

>MS.gene36310.t1

MGKGTGSFGKRRNKTHTLCVRCGRRSFHLQKSRCSACAYPAARVRKYNWSEKAIRRKTTGTGRMRYLRNVPRRFKSGFREGTEAAPRKKGAASA