AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066166

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066166.t1 MTR_2g069420 89.744 78 8 0 1 78 1 78 1.11e-39 125
MS.gene066166.t1 MTR_2g069430 87.179 78 8 1 1 78 1 76 2.31e-36 117
MS.gene066166.t1 MTR_1g040735 78.481 79 16 1 1 78 58 136 2.55e-35 116
MS.gene066166.t1 MTR_5g042360 77.215 79 17 1 1 78 1 79 4.08e-34 111
MS.gene066166.t1 MTR_1g040775 77.215 79 17 1 1 78 1 79 4.08e-34 111
MS.gene066166.t1 MTR_4g091090 83.750 80 11 2 1 78 1 80 8.14e-32 105
MS.gene066166.t1 MTR_2g069400 55.556 63 20 3 1 62 1 56 9.87e-14 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066166.t1 AT2G32210 57.895 57 20 2 22 78 19 71 2.04e-16 67.0
MS.gene066166.t1 AT2G32190 57.895 57 20 2 22 78 19 71 2.11e-16 67.0
MS.gene066166.t1 AT2G32200 48.333 60 24 3 22 78 53 108 6.37e-12 56.6
MS.gene066166.t1 AT2G32200 48.333 60 24 3 22 78 19 74 9.46e-12 55.1
MS.gene066166.t1 AT1G56060 53.571 56 20 3 26 78 19 71 6.20e-11 53.1

Find 32 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGTGGTGGATATGATAC+TGG 0.314872 2.3:+26682634 None:intergenic
CAAGGTGCGGCTTATTCTTC+AGG 0.360974 2.3:-26682616 MS.gene066166:CDS
TGTAACTGCCCCACCACCTA+TGG 0.386713 2.3:-26682587 MS.gene066166:CDS
CCCCTGGATGTAGTCTGGTC+TGG 0.437327 2.3:+26682517 None:intergenic
CTTGTGGTGGATATGATACT+GGG 0.443742 2.3:+26682635 None:intergenic
GGTCTGGAATCCTTTGTTGA+GGG 0.462481 2.3:+26682533 None:intergenic
TAACTTAAAAGCAAATATCA+AGG 0.472631 2.3:+26682446 None:intergenic
CATCACCCCTGGATGTAGTC+TGG 0.478425 2.3:+26682512 None:intergenic
GGTGGTGGGGCAGTTACATA+TGG 0.492370 2.3:+26682592 None:intergenic
GAAGGATAACCCATAGGTGG+TGG 0.499225 2.3:+26682577 None:intergenic
CCTTCCAAGGATAGCTCTGA+AGG 0.509331 2.3:-26682559 MS.gene066166:CDS
GTACCCTTCAGAGCTATCCT+TGG 0.526753 2.3:+26682555 None:intergenic
TGGTCTGGAATCCTTTGTTG+AGG 0.548204 2.3:+26682532 None:intergenic
TTCCAGACCAGACTACATCC+AGG 0.550841 2.3:-26682519 MS.gene066166:CDS
AAGGATAACCCATAGGTGGT+GGG 0.565440 2.3:+26682578 None:intergenic
GTAACTGCCCCACCACCTAT+GGG 0.572378 2.3:-26682586 MS.gene066166:CDS
CAGACTACATCCAGGGGTGA+TGG 0.573015 2.3:-26682511 MS.gene066166:CDS
ACCTATGGGTTATCCTTCCA+AGG 0.583023 2.3:-26682572 MS.gene066166:CDS
GAATAAGCCGCACCTTGTGG+TGG 0.586223 2.3:+26682622 None:intergenic
CCTTCAGAGCTATCCTTGGA+AGG 0.595376 2.3:+26682559 None:intergenic
GAAGAATAAGCCGCACCTTG+TGG 0.599730 2.3:+26682619 None:intergenic
ATCATATCCACCACAAGGTG+CGG 0.605203 2.3:-26682629 MS.gene066166:CDS
AGGATAACCCATAGGTGGTG+GGG 0.605641 2.3:+26682579 None:intergenic
TCCAGACCAGACTACATCCA+GGG 0.615949 2.3:-26682518 MS.gene066166:CDS
AACTTAAAAGCAAATATCAA+GGG 0.622606 2.3:+26682447 None:intergenic
CTTCCAAGGATAGCTCTGAA+GGG 0.626012 2.3:-26682558 MS.gene066166:CDS
CCAGTATCATATCCACCACA+AGG 0.655076 2.3:-26682634 MS.gene066166:CDS
CTGAAGGGTACCCTCAACAA+AGG 0.674821 2.3:-26682543 MS.gene066166:CDS
TTGGAAGGATAACCCATAGG+TGG 0.675232 2.3:+26682574 None:intergenic
TCCTTGGAAGGATAACCCAT+AGG 0.680712 2.3:+26682571 None:intergenic
TTGTGGTGGATATGATACTG+GGG 0.688601 2.3:+26682636 None:intergenic
CCAGACCAGACTACATCCAG+GGG 0.729280 2.3:-26682517 MS.gene066166:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CTTGTGGTGGATATGATACT+GGG + chr2.3:26682482-26682501 None:intergenic 40.0%
!! TTGTGGTGGATATGATACTG+GGG + chr2.3:26682481-26682500 None:intergenic 40.0%
AAGGATAACCCATAGGTGGT+GGG + chr2.3:26682539-26682558 None:intergenic 45.0%
ATCATATCCACCACAAGGTG+CGG - chr2.3:26682485-26682504 MS.gene066166:CDS 45.0%
CCAGTATCATATCCACCACA+AGG - chr2.3:26682480-26682499 MS.gene066166:CDS 45.0%
TCCTTGGAAGGATAACCCAT+AGG + chr2.3:26682546-26682565 None:intergenic 45.0%
TTGGAAGGATAACCCATAGG+TGG + chr2.3:26682543-26682562 None:intergenic 45.0%
! ACCTATGGGTTATCCTTCCA+AGG - chr2.3:26682542-26682561 MS.gene066166:CDS 45.0%
! GGTCTGGAATCCTTTGTTGA+GGG + chr2.3:26682584-26682603 None:intergenic 45.0%
! TGGTCTGGAATCCTTTGTTG+AGG + chr2.3:26682585-26682604 None:intergenic 45.0%
!! AGGGGTGATGGTTTTTGGAA+GGG - chr2.3:26682615-26682634 MS.gene066166:CDS 45.0%
!! CCTTGTGGTGGATATGATAC+TGG + chr2.3:26682483-26682502 None:intergenic 45.0%
!! CTTCCAAGGATAGCTCTGAA+GGG - chr2.3:26682556-26682575 MS.gene066166:CDS 45.0%
AGGATAACCCATAGGTGGTG+GGG + chr2.3:26682538-26682557 None:intergenic 50.0%
CAAGGTGCGGCTTATTCTTC+AGG - chr2.3:26682498-26682517 MS.gene066166:CDS 50.0%
CCTTCAGAGCTATCCTTGGA+AGG + chr2.3:26682558-26682577 None:intergenic 50.0%
CTTCCAAAAACCATCACCCC+TGG + chr2.3:26682616-26682635 None:intergenic 50.0%
GAAGAATAAGCCGCACCTTG+TGG + chr2.3:26682498-26682517 None:intergenic 50.0%
GAAGGATAACCCATAGGTGG+TGG + chr2.3:26682540-26682559 None:intergenic 50.0%
GTACCCTTCAGAGCTATCCT+TGG + chr2.3:26682562-26682581 None:intergenic 50.0%
TCCAGACCAGACTACATCCA+GGG - chr2.3:26682596-26682615 MS.gene066166:CDS 50.0%
TTCCAGACCAGACTACATCC+AGG - chr2.3:26682595-26682614 MS.gene066166:CDS 50.0%
!! CAGGGGTGATGGTTTTTGGA+AGG - chr2.3:26682614-26682633 MS.gene066166:CDS 50.0%
!! CATCCAGGGGTGATGGTTTT+TGG - chr2.3:26682610-26682629 MS.gene066166:CDS 50.0%
!! CCTTCCAAGGATAGCTCTGA+AGG - chr2.3:26682555-26682574 MS.gene066166:CDS 50.0%
!! CTGAAGGGTACCCTCAACAA+AGG - chr2.3:26682571-26682590 MS.gene066166:CDS 50.0%
CAGACTACATCCAGGGGTGA+TGG - chr2.3:26682603-26682622 MS.gene066166:CDS 55.0%
CATCACCCCTGGATGTAGTC+TGG + chr2.3:26682605-26682624 None:intergenic 55.0%
CCAGACCAGACTACATCCAG+GGG - chr2.3:26682597-26682616 MS.gene066166:CDS 55.0%
GAATAAGCCGCACCTTGTGG+TGG + chr2.3:26682495-26682514 None:intergenic 55.0%
GTAACTGCCCCACCACCTAT+GGG - chr2.3:26682528-26682547 MS.gene066166:CDS 55.0%
TGTAACTGCCCCACCACCTA+TGG - chr2.3:26682527-26682546 MS.gene066166:CDS 55.0%
!! GGTGGTGGGGCAGTTACATA+TGG + chr2.3:26682525-26682544 None:intergenic 55.0%
CCCCTGGATGTAGTCTGGTC+TGG + chr2.3:26682600-26682619 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 26682450 26682686 26682450 ID=MS.gene066166
chr2.3 mRNA 26682450 26682686 26682450 ID=MS.gene066166.t1;Parent=MS.gene066166
chr2.3 exon 26682450 26682686 26682450 ID=MS.gene066166.t1.exon1;Parent=MS.gene066166.t1
chr2.3 CDS 26682450 26682686 26682450 ID=cds.MS.gene066166.t1;Parent=MS.gene066166.t1
Gene Sequence

>MS.gene066166

ATGAGTAACTTCAACAATAAGCAACAAGCCCCAGTATCATATCCACCACAAGGTGCGGCTTATTCTTCAGGACCATATGTAACTGCCCCACCACCTATGGGTTATCCTTCCAAGGATAGCTCTGAAGGGTACCCTCAACAAAGGATTCCAGACCAGACTACATCCAGGGGTGATGGTTTTTGGAAGGGATGTTGTGCTGCTATATGCTGTTGTTGTGCCCTTGATATTTGCTTTTAA
Protein sequence

>MS.gene066166.t1

MSNFNNKQQAPVSYPPQGAAYSSGPYVTAPPPMGYPSKDSSEGYPQQRIPDQTTSRGDGFWKGCCAAICCCCALDICF