AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene98926

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene98926.t1 MTR_8g092880 61.728 81 6 2 5 70 102 172 1.04e-22 86.3
MS.gene98926.t1 MTR_8g092880 66.102 59 5 1 5 48 102 160 1.10e-17 72.8
MS.gene98926.t1 MTR_5g078250 41.176 85 49 1 1 85 221 304 1.62e-14 67.4
MS.gene98926.t1 MTR_6g033945 42.105 76 36 1 1 76 153 220 1.60e-13 63.2
MS.gene98926.t1 MTR_8g062030 37.805 82 51 0 4 85 224 305 1.77e-12 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 22 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTACACGGGGACCAAGTA+TGG 0.234472 6.2:+38207950 None:intergenic
TATTTCAGGGTGGGCTTTGA+TGG 0.281036 6.2:-38207996 MS.gene98926:intron
TCCAGGACTGTTCCCATACT+TGG 0.415477 6.2:-38207963 MS.gene98926:CDS
ACAATAAAAGTTTCATCGTC+AGG 0.420011 6.2:+38207861 None:intergenic
CCATACTTGGTCCCCGTGTA+AGG 0.442603 6.2:-38207950 MS.gene98926:CDS
TGAAGAGCCTGTAGAATGTC+AGG 0.442841 6.2:+38208117 None:intergenic
ACCAAGTATGGGAACAGTCC+TGG 0.464482 6.2:+38207962 None:intergenic
CAGGCTCTTCAACTGAAGAA+TGG 0.470883 6.2:-38208105 MS.gene98926:CDS
AGGCTCTTCAACTGAAGAAT+GGG 0.483358 6.2:-38208104 MS.gene98926:intron
CATCAAAAGACGACCTTACA+CGG 0.492369 6.2:+38207937 None:intergenic
TTGATGGAGTTGAGACATCC+AGG 0.509692 6.2:-38207980 MS.gene98926:CDS
GATCAATCCTGACATTCTAC+AGG 0.516099 6.2:-38208124 MS.gene98926:CDS
ATCAAAAGACGACCTTACAC+GGG 0.577940 6.2:+38207938 None:intergenic
CTTACACGGGGACCAAGTAT+GGG 0.587588 6.2:+38207951 None:intergenic
TTATGAATATGACCGTGGTT+GGG 0.609139 6.2:-38207817 MS.gene98926:CDS
GTTATGAATATGACCGTGGT+TGG 0.610410 6.2:-38207818 MS.gene98926:CDS
TATATCAATCAGCTGAGCAA+TGG 0.612837 6.2:+38207884 None:intergenic
AGAATGCGATGAATATAACT+AGG 0.626097 6.2:-38208152 None:intergenic
TGAATATGACCGTGGTTGGG+TGG 0.627147 6.2:-38207814 MS.gene98926:CDS
TTCAATCAACCACCCAACCA+CGG 0.656031 6.2:+38207805 None:intergenic
TCAAAAGACGACCTTACACG+GGG 0.716939 6.2:+38207939 None:intergenic
GAGAGTTATGAATATGACCG+TGG 0.763284 6.2:-38207822 MS.gene98926:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACAATAAAAGTTTCATCGTC+AGG + chr6.2:38208092-38208111 None:intergenic 30.0%
GACATGAGTGCTATATTTCA+GGG - chr6.2:38207941-38207960 MS.gene98926:CDS 35.0%
TATATCAATCAGCTGAGCAA+TGG + chr6.2:38208069-38208088 None:intergenic 35.0%
TGACATGAGTGCTATATTTC+AGG - chr6.2:38207940-38207959 MS.gene98926:CDS 35.0%
TTATGAATATGACCGTGGTT+GGG - chr6.2:38208133-38208152 MS.gene98926:CDS 35.0%
AGGCTCTTCAACTGAAGAAT+GGG - chr6.2:38207846-38207865 MS.gene98926:CDS 40.0%
ATCAAAAGACGACCTTACAC+GGG + chr6.2:38208015-38208034 None:intergenic 40.0%
ATGAGTGCTATATTTCAGGG+TGG - chr6.2:38207944-38207963 MS.gene98926:CDS 40.0%
CATCAAAAGACGACCTTACA+CGG + chr6.2:38208016-38208035 None:intergenic 40.0%
GAGAGTTATGAATATGACCG+TGG - chr6.2:38208128-38208147 MS.gene98926:CDS 40.0%
GATCAATCCTGACATTCTAC+AGG - chr6.2:38207826-38207845 MS.gene98926:CDS 40.0%
GTTATGAATATGACCGTGGT+TGG - chr6.2:38208132-38208151 MS.gene98926:CDS 40.0%
TGAGTGCTATATTTCAGGGT+GGG - chr6.2:38207945-38207964 MS.gene98926:CDS 40.0%
CAGGCTCTTCAACTGAAGAA+TGG - chr6.2:38207845-38207864 MS.gene98926:CDS 45.0%
TCAAAAGACGACCTTACACG+GGG + chr6.2:38208014-38208033 None:intergenic 45.0%
TGAAGAGCCTGTAGAATGTC+AGG + chr6.2:38207836-38207855 None:intergenic 45.0%
TTGATGGAGTTGAGACATCC+AGG - chr6.2:38207970-38207989 MS.gene98926:CDS 45.0%
! TATTTCAGGGTGGGCTTTGA+TGG - chr6.2:38207954-38207973 MS.gene98926:CDS 45.0%
ACCAAGTATGGGAACAGTCC+TGG + chr6.2:38207991-38208010 None:intergenic 50.0%
CTTACACGGGGACCAAGTAT+GGG + chr6.2:38208002-38208021 None:intergenic 50.0%
TCCAGGACTGTTCCCATACT+TGG - chr6.2:38207987-38208006 MS.gene98926:CDS 50.0%
TGAATATGACCGTGGTTGGG+TGG - chr6.2:38208136-38208155 MS.gene98926:CDS 50.0%
CCATACTTGGTCCCCGTGTA+AGG - chr6.2:38208000-38208019 MS.gene98926:intron 55.0%
CCTTACACGGGGACCAAGTA+TGG + chr6.2:38208003-38208022 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 38207806 38208166 38207806 ID=MS.gene98926
chr6.2 mRNA 38207806 38208166 38207806 ID=MS.gene98926.t1;Parent=MS.gene98926
chr6.2 exon 38208105 38208166 38208105 ID=MS.gene98926.t1.exon1;Parent=MS.gene98926.t1
chr6.2 CDS 38208105 38208166 38208105 ID=cds.MS.gene98926.t1;Parent=MS.gene98926.t1
chr6.2 exon 38207806 38208010 38207806 ID=MS.gene98926.t1.exon2;Parent=MS.gene98926.t1
chr6.2 CDS 38207806 38208010 38207806 ID=cds.MS.gene98926.t1;Parent=MS.gene98926.t1
Gene Sequence

>MS.gene98926

ATGAATATAACTAGGCTCTTGATCAATCCTGACATTCTACAGGCTCTTCAACTGAAGAATGGGTATGTTTTTTATTGTATATCTATATAACTTCAGAATTTTCTGATGTAGATGTCATTGTATATCAATTGTTGTGACATGAGTGCTATATTTCAGGGTGGGCTTTGATGGAGTTGAGACATCCAGGACTGTTCCCATACTTGGTCCCCGTGTAAGGTCGTCTTTTGATGAAGTGTTTTTGCGATTGTATGCAAAGAAAACCATTGCTCAGCTGATTGATATACCTGACGATGAAACTTTTATTGTAAGTGCAACTGTTAATGAGAGTTATGAATATGACCGTGGTTGGGTGGTTGATTGA
Protein sequence

>MS.gene98926.t1

MNITRLLINPDILQALQLKNGVGFDGVETSRTVPILGPRVRSSFDEVFLRLYAKKTIAQLIDIPDDETFIVSATVNESYEYDRGWVVD