AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene06010


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06010.t1 MTR_8g098940 97.368 114 3 0 1 114 27 140 8.32e-77 231
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06010.t1 AT1G63980 66.102 118 36 1 1 114 27 144 1.04e-47 157
MS.gene06010.t1 AT1G63980 66.667 120 34 2 1 114 27 146 7.90e-47 154

Find 32 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCAGTAGTGTCTTGTTTGT+TGG 0.402610 4.1:+5279300 None:intergenic
AATAGAGAGTAACACGGTTA+AGG 0.407598 4.1:-5278597 MS.gene06010:intron
TCCTTGTGGTCTAGTAGCTC+TGG 0.416775 4.1:+5278529 None:intergenic
AACTTACAAGAATTCCTTCA+AGG 0.428878 4.1:+5278368 None:intergenic
AATTCCTTCAAGGTCCTTTG+AGG 0.436390 4.1:+5278378 None:intergenic
TTGTTTAAGGGATGGGAAGA+AGG 0.443849 4.1:-5279373 None:intergenic
ACAGCAACCTCAGGATCAAC+AGG 0.453089 4.1:+5278554 None:intergenic
TGATGTTATACCTGTGTCAT+TGG 0.466241 4.1:+5278710 None:intergenic
GTGTCAAATGCCCATTGGTT+CGG 0.470536 4.1:+5278888 None:intergenic
TATTCCTCAAAGGACCTTGA+AGG 0.471143 4.1:-5278382 MS.gene06010:CDS
TGGGAAGAAGGAGAAGGTCT+TGG 0.485044 4.1:-5279361 MS.gene06010:CDS
ATACCTGTGTCATTGGATAC+TGG 0.507229 4.1:+5278717 None:intergenic
AGATACAAGAAAAGAGAAAG+AGG 0.522803 4.1:-5278421 MS.gene06010:CDS
ATCAACAGGAACAGCCGCCT+CGG 0.543358 4.1:+5278568 None:intergenic
ATTAGAGAAGCCGAACCAAT+GGG 0.550574 4.1:-5278898 MS.gene06010:CDS
TGTCTCTCATTATTCCTCAA+AGG 0.561666 4.1:-5278392 MS.gene06010:CDS
GATTAGAGAAGCCGAACCAA+TGG 0.568653 4.1:-5278899 MS.gene06010:CDS
ACCAACAAACAAGACACTAC+TGG 0.578786 4.1:-5279301 MS.gene06010:intron
GGCTGTTCCTGTTGATCCTG+AGG 0.579039 4.1:-5278561 MS.gene06010:CDS
AAGGGATGGGAAGAAGGAGA+AGG 0.581093 4.1:-5279367 MS.gene06010:CDS
AGAGAGTAACACGGTTAAGG+TGG 0.584039 4.1:-5278594 MS.gene06010:CDS
GATACAAGAAAAGAGAAAGA+GGG 0.596354 4.1:-5278420 MS.gene06010:CDS
GCTCTGGATACAGCAACCTC+AGG 0.600918 4.1:+5278545 None:intergenic
CACGGTTAAGGTGGAAACCG+AGG 0.620613 4.1:-5278585 MS.gene06010:CDS
GTGTGGTGTCAAATGCCCAT+TGG 0.646928 4.1:+5278883 None:intergenic
GAGCTACTAGACCACAAGGA+AGG 0.652543 4.1:-5278526 MS.gene06010:intron
GAGTATGTTATCAAATTGTG+TGG 0.654612 4.1:+5278866 None:intergenic
TCCAGAGCTACTAGACCACA+AGG 0.671642 4.1:-5278530 MS.gene06010:CDS
GCGCCAGTATCCAATGACAC+AGG 0.676662 4.1:-5278720 MS.gene06010:intron
AAACGTACAGACCTTCCTTG+TGG 0.713884 4.1:+5278515 None:intergenic
GGTTTAAATAGAGAGTAACA+CGG 0.716553 4.1:-5278603 MS.gene06010:intron
GGTTAAGGTGGAAACCGAGG+CGG 0.731442 4.1:-5278582 MS.gene06010:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTGTTTGTTCAATTTTAAAT+AGG - chr4.1:5278812-5278831 MS.gene06010:intron 15.0%
!! ATTAAGCTGTTTATTCAAAT+AGG - chr4.1:5278782-5278801 MS.gene06010:intron 20.0%
!! TGTTAATGAACATATTATGA+TGG - chr4.1:5279093-5279112 MS.gene06010:intron 20.0%
!!! GTTCAATTTTAAATAGGTAT+TGG - chr4.1:5278818-5278837 MS.gene06010:intron 20.0%
! ATTGGTGAAAAAAAGAAGAA+AGG + chr4.1:5278468-5278487 None:intergenic 25.0%
! TAATTTACTGAAAATCACAG+AGG + chr4.1:5279057-5279076 None:intergenic 25.0%
! TATGATAAGTGCTTATGTAT+AGG + chr4.1:5278739-5278758 None:intergenic 25.0%
!! AAAAAGAAAAGTCTTTTGAG+AGG + chr4.1:5279291-5279310 None:intergenic 25.0%
!! GTTCTGAATAAACAGTAAAT+TGG + chr4.1:5278486-5278505 None:intergenic 25.0%
!!! GTTTGTGTTTTTATCTATTG+TGG - chr4.1:5279115-5279134 MS.gene06010:intron 25.0%
AAAGAAAAACAAGGGATCAA+AGG - chr4.1:5278402-5278421 MS.gene06010:CDS 30.0%
AGATACAAGAAAAGAGAAAG+AGG - chr4.1:5279318-5279337 MS.gene06010:CDS 30.0%
ATCTACTCACATAAGTATGT+CGG - chr4.1:5278620-5278639 MS.gene06010:intron 30.0%
CGGTATTTGTGATACTATTT+GGG - chr4.1:5278640-5278659 MS.gene06010:intron 30.0%
GAGTATGTTATCAAATTGTG+TGG + chr4.1:5278876-5278895 None:intergenic 30.0%
GATACAAGAAAAGAGAAAGA+GGG - chr4.1:5279319-5279338 MS.gene06010:CDS 30.0%
GGTTTAAATAGAGAGTAACA+CGG - chr4.1:5279136-5279155 MS.gene06010:intron 30.0%
TCGGTATTTGTGATACTATT+TGG - chr4.1:5278639-5278658 MS.gene06010:intron 30.0%
AATAGAGAGTAACACGGTTA+AGG - chr4.1:5279142-5279161 MS.gene06010:intron 35.0%
GTCTTGGCAAAGAAAAACAA+GGG - chr4.1:5278394-5278413 MS.gene06010:CDS 35.0%
GTTATGCTATGCTATGCTTA+GGG - chr4.1:5278571-5278590 MS.gene06010:CDS 35.0%
TGATGTTATACCTGTGTCAT+TGG + chr4.1:5279032-5279051 None:intergenic 35.0%
TGTCTCTCATTATTCCTCAA+AGG - chr4.1:5279347-5279366 MS.gene06010:CDS 35.0%
TGTTATGCTATGCTATGCTT+AGG - chr4.1:5278570-5278589 MS.gene06010:CDS 35.0%
AAGGACCTTGAAGGAATTCT+TGG - chr4.1:5279366-5279385 MS.gene06010:CDS 40.0%
AATTCCTTCAAGGTCCTTTG+AGG + chr4.1:5279364-5279383 None:intergenic 40.0%
ACCAACAAACAAGACACTAC+TGG - chr4.1:5278438-5278457 MS.gene06010:intron 40.0%
ATTAGAGAAGCCGAACCAAT+GGG - chr4.1:5278841-5278860 MS.gene06010:intron 40.0%
GGTCTTGGCAAAGAAAAACA+AGG - chr4.1:5278393-5278412 MS.gene06010:CDS 40.0%
TATTCCTCAAAGGACCTTGA+AGG - chr4.1:5279357-5279376 MS.gene06010:CDS 40.0%
! ATACCTGTGTCATTGGATAC+TGG + chr4.1:5279025-5279044 None:intergenic 40.0%
!! ACCAGTAGTGTCTTGTTTGT+TGG + chr4.1:5278442-5278461 None:intergenic 40.0%
AAACGTACAGACCTTCCTTG+TGG + chr4.1:5279227-5279246 None:intergenic 45.0%
AGAGAGTAACACGGTTAAGG+TGG - chr4.1:5279145-5279164 MS.gene06010:intron 45.0%
GATTAGAGAAGCCGAACCAA+TGG - chr4.1:5278840-5278859 MS.gene06010:intron 45.0%
! GTGTCAAATGCCCATTGGTT+CGG + chr4.1:5278854-5278873 None:intergenic 45.0%
ACAGCAACCTCAGGATCAAC+AGG + chr4.1:5279188-5279207 None:intergenic 50.0%
GAGCTACTAGACCACAAGGA+AGG - chr4.1:5279213-5279232 MS.gene06010:intron 50.0%
TCCAGAGCTACTAGACCACA+AGG - chr4.1:5279209-5279228 MS.gene06010:intron 50.0%
TCCTTGTGGTCTAGTAGCTC+TGG + chr4.1:5279213-5279232 None:intergenic 50.0%
TGGGAAGAAGGAGAAGGTCT+TGG - chr4.1:5278378-5278397 MS.gene06010:CDS 50.0%
! GTGTGGTGTCAAATGCCCAT+TGG + chr4.1:5278859-5278878 None:intergenic 50.0%
ATCAACAGGAACAGCCGCCT+CGG + chr4.1:5279174-5279193 None:intergenic 55.0%
CACGGTTAAGGTGGAAACCG+AGG - chr4.1:5279154-5279173 MS.gene06010:intron 55.0%
GCGCCAGTATCCAATGACAC+AGG - chr4.1:5279019-5279038 MS.gene06010:intron 55.0%
GGCTGTTCCTGTTGATCCTG+AGG - chr4.1:5279178-5279197 MS.gene06010:intron 55.0%
GGTTAAGGTGGAAACCGAGG+CGG - chr4.1:5279157-5279176 MS.gene06010:intron 55.0%
! GCTCTGGATACAGCAACCTC+AGG + chr4.1:5279197-5279216 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 5278375 5279386 5278375 ID=MS.gene06010
chr4.1 mRNA 5278375 5279386 5278375 ID=MS.gene06010.t1;Parent=MS.gene06010
chr4.1 exon 5279302 5279386 5279302 ID=MS.gene06010.t1.exon1;Parent=MS.gene06010.t1
chr4.1 CDS 5279302 5279386 5279302 ID=cds.MS.gene06010.t1;Parent=MS.gene06010.t1
chr4.1 exon 5278851 5278927 5278851 ID=MS.gene06010.t1.exon2;Parent=MS.gene06010.t1
chr4.1 CDS 5278851 5278927 5278851 ID=cds.MS.gene06010.t1;Parent=MS.gene06010.t1
chr4.1 exon 5278721 5278745 5278721 ID=MS.gene06010.t1.exon3;Parent=MS.gene06010.t1
chr4.1 CDS 5278721 5278745 5278721 ID=cds.MS.gene06010.t1;Parent=MS.gene06010.t1
chr4.1 exon 5278527 5278614 5278527 ID=MS.gene06010.t1.exon4;Parent=MS.gene06010.t1
chr4.1 CDS 5278527 5278614 5278527 ID=cds.MS.gene06010.t1;Parent=MS.gene06010.t1
chr4.1 exon 5278375 5278441 5278375 ID=MS.gene06010.t1.exon5;Parent=MS.gene06010.t1
chr4.1 CDS 5278375 5278441 5278375 ID=cds.MS.gene06010.t1;Parent=MS.gene06010.t1
Gene Sequence

>MS.gene06010

GGATGGGAAGAAGGAGAAGGTCTTGGCAAAGAAAAACAAGGGATCAAAGGACACGTTCGTGTCACCAACAAACAAGACACTACTGGTTCTCCTTTCTTCTTTTTTTCACCAATTTACTGTTTATTCAGAACAATTACTTATTAGATTAATCATGTATTCAGAATAATTAAGCAATTTTAGTATTCTATAATGTTATGTTATGCTATGCTATGCTTAGGGCGTGTTTCGTTTAGCTTAGTTAACTTATCTACTCACATAAGTATGTCGGTATTTGTGATACTATTTGGGAGAACTTATGAAAACAGCTTATAGCTTATACAAAAACAATTTAACTTTATTTTATATTTTATTATAGAAAAAGCCTATACATAAGCACTTATCATAAGTGTTTATGCTATAAGCTGCAAATTAAGCTGTTTATTCAAATAGGTCTGAGTTTGTTTGTTCAATTTTAAATAGGTATTGGATTAGAGAAGCCGAACCAATGGGCATTTGACACCACACAATTTGATAACATACTCAAGAGATTGAAAGTTGTATGTTTCTTTCTCTCTTTTCATCTTAATTAATTCTCATTTATTTGTACAATTATTTTTCTCTTCACTGAAATATTTCTTTTTGTATTTTTCTGTATTTGATAGCAAGCGCCAGTATCCAATGACACAGGTATAACATCAGTCCTCTGTGATTTTCAGTAAATTATCGTATTGTTTTGCTATGTTAATGAACATATTATGATGGTTTGTGTTTTTATCTATTGTGGTTTAAATAGAGAGTAACACGGTTAAGGTGGAAACCGAGGCGGCTGTTCCTGTTGATCCTGAGGTTGCTGTATCCAGAGCTACTAGACCACAAGGAAGGTCTGTACGTTTTCATTCATTGTGTTGTTTATTGTTTATATAACTACATATATCCTCTCAAAAGACTTTTCTTTTTAATTTTCAGATACAAGAAAAGAGAAAGAGGGAAGCTTGTCTCTCATTATTCCTCAAAGGACCTTGAAGGAATTCTT

Protein sequence

>MS.gene06010.t1

GWEEGEGLGKEKQGIKGHVRVTNKQDTTGIGLEKPNQWAFDTTQFDNILKRLKVQAPVSNDTESNTVKVETEAAVPVDPEVAVSRATRPQGRYKKRERGKLVSHYSSKDLEGIL