AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene033837

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033837.t1 MTR_2g049305 69.737 76 20 1 1 73 219 294 5.97e-29 105
MS.gene033837.t1 MTR_8g014500 68.750 48 13 1 1 46 386 433 1.57e-15 69.7
MS.gene033837.t1 MTR_8g014500 68.750 48 13 1 1 46 386 433 2.19e-15 69.3
MS.gene033837.t1 MTR_8g014500 68.750 48 13 1 1 46 386 433 3.48e-15 68.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033837.t1 AT1G51940 68.293 41 13 0 1 41 370 410 1.73e-13 63.9

Find 17 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGAGCCTTTCCTTATTTA+TGG 0.103423 2.2:+37815665 MS.gene033837:CDS
CAGGTCGTTCAACACTTACT+TGG 0.313350 2.2:+37815824 MS.gene033837:intron
TTCCTTATTTATGGCTCAAA+AGG 0.344427 2.2:+37815674 MS.gene033837:CDS
TTAATTTGTCAAGGTAGAAT+TGG 0.377828 2.2:+37815622 MS.gene033837:intron
CAAGGTTCATCATACAAATC+TGG 0.411150 2.2:+37815527 MS.gene033837:CDS
ACTGTATGATCCTCAAAAGA+AGG 0.493712 2.2:+37815720 MS.gene033837:CDS
ATCATGATTAGCCGTGTAGC+CGG 0.520664 2.2:-37815645 None:intergenic
TCCTTATTTATGGCTCAAAA+GGG 0.526308 2.2:+37815675 MS.gene033837:CDS
CAACACTTACTTGGACCACA+AGG 0.535007 2.2:+37815833 MS.gene033837:CDS
CTGTATGATCCTCAAAAGAA+GGG 0.552384 2.2:+37815721 MS.gene033837:CDS
TTTGAGCCATAAATAAGGAA+AGG 0.561801 2.2:-37815671 None:intergenic
TTTGTCAAGGTAGAATTGGC+CGG 0.563620 2.2:+37815626 MS.gene033837:intron
GGTAGAATTGGCCGGCTACA+CGG 0.572213 2.2:+37815634 MS.gene033837:intron
AACACTTACTTGGACCACAA+GGG 0.662606 2.2:+37815834 MS.gene033837:CDS
GTATACACATGGCTGCTGAG+TGG 0.667900 2.2:-37815699 None:intergenic
AGGATCATACAGTATACACA+TGG 0.701901 2.2:-37815710 None:intergenic
GAGCACAATCTGAACCCTTG+TGG 0.702025 2.2:-37815848 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GGAAAATTAAAAATAATCTA+TGG + chr2.2:37815775-37815794 MS.gene033837:intron 15.0%
!!! TTTATAAGTTTAATTTGTCA+AGG + chr2.2:37815613-37815632 MS.gene033837:intron 15.0%
!! TTAAACTTATAAATGCTGTA+AGG - chr2.2:37815606-37815625 None:intergenic 20.0%
!!! TTAATTTGTCAAGGTAGAAT+TGG + chr2.2:37815622-37815641 MS.gene033837:intron 25.0%
TTTGAGCCATAAATAAGGAA+AGG - chr2.2:37815674-37815693 None:intergenic 30.0%
! AGAGATGAAATTTTTGTGCA+AGG + chr2.2:37815509-37815528 MS.gene033837:CDS 30.0%
! TCCTTATTTATGGCTCAAAA+GGG + chr2.2:37815675-37815694 MS.gene033837:CDS 30.0%
! TTCCTTATTTATGGCTCAAA+AGG + chr2.2:37815674-37815693 MS.gene033837:CDS 30.0%
ACTGTATGATCCTCAAAAGA+AGG + chr2.2:37815720-37815739 MS.gene033837:CDS 35.0%
AGGATCATACAGTATACACA+TGG - chr2.2:37815713-37815732 None:intergenic 35.0%
CAAGGTTCATCATACAAATC+TGG + chr2.2:37815527-37815546 MS.gene033837:CDS 35.0%
CTGTATGATCCTCAAAAGAA+GGG + chr2.2:37815721-37815740 MS.gene033837:CDS 35.0%
! ACCCTTTTGAGCCATAAATA+AGG - chr2.2:37815679-37815698 None:intergenic 35.0%
! AGATTGTGCTCTTTTTATGC+AGG + chr2.2:37815860-37815879 MS.gene033837:CDS 35.0%
! GATGAGCCTTTCCTTATTTA+TGG + chr2.2:37815665-37815684 MS.gene033837:CDS 35.0%
!!! TGCTCAAGTGTTGTTTTTAC+AGG + chr2.2:37815754-37815773 MS.gene033837:intron 35.0%
AACACTTACTTGGACCACAA+GGG + chr2.2:37815834-37815853 MS.gene033837:CDS 40.0%
TTTGTCAAGGTAGAATTGGC+CGG + chr2.2:37815626-37815645 MS.gene033837:intron 40.0%
! AGTAGCAAACCCTTCTTTTG+AGG - chr2.2:37815733-37815752 None:intergenic 40.0%
! CATTTTCTTGTCTTGCTTGC+AGG + chr2.2:37815805-37815824 MS.gene033837:intron 40.0%
CAACACTTACTTGGACCACA+AGG + chr2.2:37815833-37815852 MS.gene033837:CDS 45.0%
CAGGTCGTTCAACACTTACT+TGG + chr2.2:37815824-37815843 MS.gene033837:intron 45.0%
! ATCATGATTAGCCGTGTAGC+CGG - chr2.2:37815648-37815667 None:intergenic 45.0%
GAGCACAATCTGAACCCTTG+TGG - chr2.2:37815851-37815870 None:intergenic 50.0%
GTATACACATGGCTGCTGAG+TGG - chr2.2:37815702-37815721 None:intergenic 50.0%
GGTAGAATTGGCCGGCTACA+CGG + chr2.2:37815634-37815653 MS.gene033837:intron 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 37815477 37815889 37815477 ID=MS.gene033837
chr2.2 mRNA 37815477 37815889 37815477 ID=MS.gene033837.t1;Parent=MS.gene033837
chr2.2 exon 37815477 37815548 37815477 ID=MS.gene033837.t1.exon1;Parent=MS.gene033837.t1
chr2.2 CDS 37815477 37815548 37815477 ID=cds.MS.gene033837.t1;Parent=MS.gene033837.t1
chr2.2 exon 37815635 37815742 37815635 ID=MS.gene033837.t1.exon2;Parent=MS.gene033837.t1
chr2.2 CDS 37815635 37815742 37815635 ID=cds.MS.gene033837.t1;Parent=MS.gene033837.t1
chr2.2 exon 37815827 37815889 37815827 ID=MS.gene033837.t1.exon3;Parent=MS.gene033837.t1
chr2.2 CDS 37815827 37815889 37815827 ID=cds.MS.gene033837.t1;Parent=MS.gene033837.t1
Gene Sequence

>MS.gene033837

ATGACAGCTGCTACAACTAAAGAGTTTATGTCAGAGATGAAATTTTTGTGCAAGGTTCATCATACAAATCTGGTAATTTCTTTTGTTGTTCAAAATAAATGACATACTTTAGCTTTACAGCAAATTCCTTACAGCATTTATAAGTTTAATTTGTCAAGGTAGAATTGGCCGGCTACACGGCTAATCATGATGAGCCTTTCCTTATTTATGGCTCAAAAGGGTCCACTCAGCAGCCATGTGTATACTGTATGATCCTCAAAAGAAGGGTTTGCTACTATGCTCAAGTGTTGTTTTTACAGGAAAATTAAAAATAATCTATGGCTAAGATCATTTTCTTGTCTTGCTTGCAGGTCGTTCAACACTTACTTGGACCACAAGGGTTCAGATTGTGCTCTTTTTATGCAGGTTGTTGA
Protein sequence

>MS.gene033837.t1

MTAATTKEFMSEMKFLCKVHHTNLVELAGYTANHDEPFLIYGSKGSTQQPCVYCMILKRRVVQHLLGPQGFRLCSFYAGC