AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene51427

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene51427.t1 MTR_2g035220 98.361 61 1 0 1 61 1 61 8.87e-37 120
MS.gene51427.t1 MTR_2g035210 93.443 61 4 0 1 61 1 61 6.63e-35 115
MS.gene51427.t1 MTR_2g035190 90.000 60 6 0 1 60 1 60 2.86e-32 109
MS.gene51427.t1 MTR_2g035320 90.000 60 6 0 1 60 1 60 3.33e-32 109
MS.gene51427.t1 MTR_2g035100 70.492 61 18 0 1 61 1 61 3.52e-23 86.3
MS.gene51427.t1 MTR_6g033450 68.852 61 19 0 1 61 1 61 1.56e-22 84.7
MS.gene51427.t1 MTR_4g120970 68.852 61 19 0 1 61 1 61 1.56e-22 84.7
MS.gene51427.t1 MTR_2g035105 68.852 61 19 0 1 61 1 61 2.92e-22 84.0
MS.gene51427.t1 MTR_2g035150 68.333 60 19 0 1 60 1 60 6.49e-21 80.5
MS.gene51427.t1 MTR_2g035130 66.667 60 20 0 1 60 1 60 2.65e-20 79.0
MS.gene51427.t1 MTR_2g035120 60.000 60 24 0 1 60 1 60 2.53e-17 71.2
MS.gene51427.t1 MTR_4g120760 40.845 71 37 2 1 70 1 67 3.75e-13 60.5
MS.gene51427.t1 MTR_4g120760 40.845 71 37 2 1 70 1 67 4.27e-13 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 18 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATAATTTCTTGATGGTTCC+TGG 0.258662 2.2:+53660682 None:intergenic
TGGGCAGCTGGAATCACCTT+TGG 0.352078 2.2:+53660736 None:intergenic
CTCTCAAATTTGAGAATTGA+AGG 0.360208 2.2:-53660517 None:intergenic
GGGCAGCTGGAATCACCTTT+GGG 0.381427 2.2:+53660737 None:intergenic
AGAGCTTTGTAGAGTTTAGC+TGG 0.394931 2.2:+53660784 None:intergenic
CTTCAACAATTTCAACACTC+TGG 0.405408 2.2:+53660716 None:intergenic
AGACATGGATAATTTCTTGA+TGG 0.415791 2.2:+53660675 None:intergenic
ATTTCAACACTCTGGGCAGC+TGG 0.438114 2.2:+53660724 None:intergenic
GTTGAAATTGTTGAAGGAAA+TGG 0.443294 2.2:-53660709 MS.gene51427:CDS
TTCAACAATTTCAACACTCT+GGG 0.491385 2.2:+53660717 None:intergenic
CAGAGTGTTGAAATTGTTGA+AGG 0.502542 2.2:-53660715 MS.gene51427:CDS
CTTCAATTCTCAAATTTGAG+AGG 0.510755 2.2:+53660518 None:intergenic
TTATCAATTACCTTCAGACA+TGG 0.569245 2.2:+53660660 None:intergenic
GAAATTGTTGAAGGAAATGG+TGG 0.582127 2.2:-53660706 MS.gene51427:CDS
GTTGAAGGAAATGGTGGACC+AGG 0.585895 2.2:-53660700 MS.gene51427:CDS
AAGAAATTATCCATGTCTGA+AGG 0.597444 2.2:-53660670 MS.gene51427:intron
TGCTGATGAAATCATCCCAA+AGG 0.616025 2.2:-53660752 MS.gene51427:CDS
TGATGAACATGTCTCAACTG+TGG 0.723859 2.2:-53660809 MS.gene51427:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTCAATTCAAGTATTTGAAT+AGG - chr2.2:53660792-53660811 MS.gene51427:CDS 20.0%
!! TTGAATTCAACAACTCTTTT+TGG + chr2.2:53660777-53660796 None:intergenic 25.0%
AAGAAATTATCCATGTCTGA+AGG - chr2.2:53660679-53660698 MS.gene51427:CDS 30.0%
AGACATGGATAATTTCTTGA+TGG + chr2.2:53660677-53660696 None:intergenic 30.0%
GTTGAAATTGTTGAAGGAAA+TGG - chr2.2:53660640-53660659 MS.gene51427:intron 30.0%
TTATCAATTACCTTCAGACA+TGG + chr2.2:53660692-53660711 None:intergenic 30.0%
TTCAACAATTTCAACACTCT+GGG + chr2.2:53660635-53660654 None:intergenic 30.0%
CTTCAACAATTTCAACACTC+TGG + chr2.2:53660636-53660655 None:intergenic 35.0%
GAAATTGTTGAAGGAAATGG+TGG - chr2.2:53660643-53660662 MS.gene51427:intron 35.0%
! GATAATTTCTTGATGGTTCC+TGG + chr2.2:53660670-53660689 None:intergenic 35.0%
!! CAGAGTGTTGAAATTGTTGA+AGG - chr2.2:53660634-53660653 MS.gene51427:intron 35.0%
TGATGAACATGTCTCAACTG+TGG - chr2.2:53660540-53660559 MS.gene51427:intron 40.0%
TGCTGATGAAATCATCCCAA+AGG - chr2.2:53660597-53660616 MS.gene51427:intron 40.0%
! AGAGCTTTGTAGAGTTTAGC+TGG + chr2.2:53660568-53660587 None:intergenic 40.0%
ATTTCAACACTCTGGGCAGC+TGG + chr2.2:53660628-53660647 None:intergenic 50.0%
!! GTTGAAGGAAATGGTGGACC+AGG - chr2.2:53660649-53660668 MS.gene51427:intron 50.0%
GGGCAGCTGGAATCACCTTT+GGG + chr2.2:53660615-53660634 None:intergenic 55.0%
TGGGCAGCTGGAATCACCTT+TGG + chr2.2:53660616-53660635 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 53660520 53660851 53660520 ID=MS.gene51427
chr2.2 mRNA 53660520 53660851 53660520 ID=MS.gene51427.t1;Parent=MS.gene51427
chr2.2 exon 53660671 53660851 53660671 ID=MS.gene51427.t1.exon1;Parent=MS.gene51427.t1
chr2.2 CDS 53660671 53660851 53660671 ID=cds.MS.gene51427.t1;Parent=MS.gene51427.t1
chr2.2 exon 53660520 53660557 53660520 ID=MS.gene51427.t1.exon2;Parent=MS.gene51427.t1
chr2.2 CDS 53660520 53660557 53660520 ID=cds.MS.gene51427.t1;Parent=MS.gene51427.t1
Gene Sequence

>MS.gene51427

ATGGGTGTTTTTGTTTTCATTGATGAACATGTCTCAACTGTGGCTCCAGCTAAACTCTACAAAGCTCTTGCAAAAGATGCTGATGAAATCATCCCAAAGGTGATTCCAGCTGCCCAGAGTGTTGAAATTGTTGAAGGAAATGGTGGACCAGGAACCATCAAGAAATTATCCATGTCTGAAGGTAATTGATAAAGAGCATATACTATATTCTGCAAAAAAAAATAAACTTTATTAATTAGTAATTCAATTGTGTACCAAAAAGAGTTGTTGAATTCAATTCAAGTATTTGAATAGGCATATACGATGTGAAACCTCTCAAATTTGAGAATTGA
Protein sequence

>MS.gene51427.t1

MGVFVFIDEHVSTVAPAKLYKALAKDADEIIPKVIPAAQSVEIVEGNGGPGTIKKLSMSEGIYDVKPLKFEN