AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene93833

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93833.t1 MTR_2g098880 31.818 110 53 3 2 89 12 121 2.06e-11 58.2
MS.gene93833.t1 MTR_2g098880 35.366 82 44 2 17 89 28 109 2.74e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93833.t1 AT2G32250 67.391 46 15 0 44 89 41 86 6.85e-14 65.9
MS.gene93833.t1 AT2G32250 67.391 46 15 0 44 89 41 86 6.85e-14 65.9
MS.gene93833.t1 AT2G32250 67.391 46 15 0 44 89 41 86 6.85e-14 65.9
MS.gene93833.t1 AT2G32250 67.391 46 15 0 44 89 41 86 6.85e-14 65.9
MS.gene93833.t1 AT2G32250 67.391 46 15 0 44 89 41 86 6.85e-14 65.9
MS.gene93833.t1 AT2G32250 67.391 46 15 0 44 89 41 86 7.45e-14 65.9
MS.gene93833.t1 AT2G32250 66.667 45 15 0 45 89 1 45 4.39e-13 63.5
MS.gene93833.t1 AT2G32250 66.667 45 15 0 45 89 1 45 4.70e-13 63.5
MS.gene93833.t1 AT3G22170 54.000 50 23 0 40 89 69 118 4.82e-13 63.5
MS.gene93833.t1 AT3G22170 54.000 50 23 0 40 89 69 118 4.82e-13 63.5
MS.gene93833.t1 AT4G15090 53.333 60 27 1 30 89 41 99 2.25e-12 61.6
MS.gene93833.t1 AT4G15090 53.333 60 27 1 30 89 41 99 2.25e-12 61.6
MS.gene93833.t1 AT4G15090 53.333 60 27 1 30 89 41 99 2.25e-12 61.6
MS.gene93833.t1 AT4G15090 53.333 60 27 1 30 89 41 99 2.25e-12 61.6
MS.gene93833.t1 AT4G15090 53.333 60 27 1 30 89 41 99 2.25e-12 61.6
MS.gene93833.t1 AT1G76320 57.778 45 19 0 45 89 1 45 1.00e-11 59.7
MS.gene93833.t1 AT1G76320 57.778 45 19 0 45 89 1 45 1.19e-11 59.3
MS.gene93833.t1 AT1G76320 57.778 45 19 0 45 89 1 45 1.23e-11 59.3
MS.gene93833.t1 AT1G76320 57.778 45 19 0 45 89 1 45 1.23e-11 59.3

Find 16 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAATTCCATTCCAATATA+AGG 0.248593 1.2:-78291377 None:intergenic
ACCAACACATGAATCATTAT+TGG 0.289874 1.2:-78291327 None:intergenic
GATTCATGTGTTGGTGATTC+AGG 0.295561 1.2:+78291335 MS.gene93833:CDS
CTCTTTATGCTAAATCTGTT+GGG 0.330055 1.2:+78291429 MS.gene93833:CDS
TCTCTTTATGCTAAATCTGT+TGG 0.349983 1.2:+78291428 MS.gene93833:CDS
GATAGTCAAGAACCTTATAT+TGG 0.357708 1.2:+78291365 MS.gene93833:CDS
TATGCTAAATCTGTTGGGTT+TGG 0.363737 1.2:+78291434 MS.gene93833:CDS
TGACTTATGCTTGCAAGATA+TGG 0.407869 1.2:+78291510 MS.gene93833:CDS
GGAATTTGAGTCACAAGAAA+AGG 0.443890 1.2:+78291391 MS.gene93833:CDS
ATGGAAGCAGCCGATGGTAA+TGG 0.467673 1.2:+78291257 MS.gene93833:CDS
TAAGCGTTCAAAGGTTTCTA+CGG 0.505629 1.2:+78291475 MS.gene93833:CDS
CAAAACTAGTAAGCGTTCAA+AGG 0.522885 1.2:+78291466 MS.gene93833:CDS
ACCAATAATGATTCATGTGT+TGG 0.526162 1.2:+78291326 MS.gene93833:CDS
TCAAGAACCTTATATTGGAA+TGG 0.539492 1.2:+78291370 MS.gene93833:CDS
AACTTGATCTCCATTACCAT+CGG 0.599452 1.2:-78291267 None:intergenic
ACATTAATGGAAGCAGCCGA+TGG 0.639840 1.2:+78291251 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TCAAATTCCATTCCAATATA+AGG - chr1.2:78291380-78291399 None:intergenic 25.0%
ACCAACACATGAATCATTAT+TGG - chr1.2:78291330-78291349 None:intergenic 30.0%
ACCAATAATGATTCATGTGT+TGG + chr1.2:78291326-78291345 MS.gene93833:CDS 30.0%
CTCTTTATGCTAAATCTGTT+GGG + chr1.2:78291429-78291448 MS.gene93833:CDS 30.0%
GATAGTCAAGAACCTTATAT+TGG + chr1.2:78291365-78291384 MS.gene93833:CDS 30.0%
TCAAGAACCTTATATTGGAA+TGG + chr1.2:78291370-78291389 MS.gene93833:CDS 30.0%
TCTCTTTATGCTAAATCTGT+TGG + chr1.2:78291428-78291447 MS.gene93833:CDS 30.0%
! AATGGAGATCAAGTTTTTGA+TGG + chr1.2:78291275-78291294 MS.gene93833:CDS 30.0%
! ATGGAGATCAAGTTTTTGAT+GGG + chr1.2:78291276-78291295 MS.gene93833:CDS 30.0%
AACTTGATCTCCATTACCAT+CGG - chr1.2:78291270-78291289 None:intergenic 35.0%
CAAAACTAGTAAGCGTTCAA+AGG + chr1.2:78291466-78291485 MS.gene93833:CDS 35.0%
GGAATTTGAGTCACAAGAAA+AGG + chr1.2:78291391-78291410 MS.gene93833:CDS 35.0%
TAAGCGTTCAAAGGTTTCTA+CGG + chr1.2:78291475-78291494 MS.gene93833:CDS 35.0%
TATGCTAAATCTGTTGGGTT+TGG + chr1.2:78291434-78291453 MS.gene93833:CDS 35.0%
TGACTTATGCTTGCAAGATA+TGG + chr1.2:78291510-78291529 MS.gene93833:CDS 35.0%
! GATCAAGTTTTTGATGGGAA+TGG + chr1.2:78291281-78291300 MS.gene93833:CDS 35.0%
!!! TGAACGCTTACTAGTTTTGA+TGG - chr1.2:78291465-78291484 None:intergenic 35.0%
!! GATTCATGTGTTGGTGATTC+AGG + chr1.2:78291335-78291354 MS.gene93833:CDS 40.0%
ATGGAAGCAGCCGATGGTAA+TGG + chr1.2:78291257-78291276 MS.gene93833:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 78291257 78291538 78291257 ID=MS.gene93833
chr1.2 mRNA 78291257 78291538 78291257 ID=MS.gene93833.t1;Parent=MS.gene93833
chr1.2 exon 78291257 78291538 78291257 ID=MS.gene93833.t1.exon1;Parent=MS.gene93833.t1
chr1.2 CDS 78291257 78291538 78291257 ID=cds.MS.gene93833.t1;Parent=MS.gene93833.t1
Gene Sequence

>MS.gene93833

ATGGAAGCAGCCGATGGTAATGGAGATCAAGTTTTTGATGGGAATGGAGAGCAAGTTGTTAACGAGACTACCAATAATGATTCATGTGTTGGTGATTCAGGAGCTAATGATAGTCAAGAACCTTATATTGGAATGGAATTTGAGTCACAAGAAAAGGCATACTCATTCTACTCTCTTTATGCTAAATCTGTTGGGTTTGGAATTTCCATCAAAACTAGTAAGCGTTCAAAGGTTTCTACGGAATTTATTGATGTGACTTATGCTTGCAAGATATGGAAATAA
Protein sequence

>MS.gene93833.t1

MEAADGNGDQVFDGNGEQVVNETTNNDSCVGDSGANDSQEPYIGMEFESQEKAYSFYSLYAKSVGFGISIKTSKRSKVSTEFIDVTYACKIWK