AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016935.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 19 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCCAATTGCTTCATCTCTT+TGG 0.237136 3:+89598731 None:intergenic
AACATTCTTGTGCAAGCTAT+TGG 0.258906 3:+89598408 None:intergenic
AAAGAACATGAATGCATTAA+AGG 0.272507 3:+89598490 None:intergenic
GCATTATGATTGTCTCAAAA+TGG 0.340973 3:-89598861 MsG0380016934.01.T01:intron
ATTGAACAGATGGAACTAAA+AGG 0.366566 3:+89598433 None:intergenic
GTGGGAGTTGTAGTTCTTGC+AGG 0.375454 3:-89598585 MsG0380016934.01.T01:CDS
CTCCAAAGAGATGAAGCAAT+TGG 0.389726 3:-89598733 MsG0380016934.01.T01:CDS
ACTCCCACGGCAACTGCAAT+AGG 0.395621 3:+89598600 None:intergenic
ATAGGGCTTAAACCTTCGTT+TGG 0.408207 3:+89598816 None:intergenic
TTTGTTGACATCTGTTGCAT+AGG 0.431914 3:+89598798 None:intergenic
TTGTTGACATCTGTTGCATA+GGG 0.437509 3:+89598799 None:intergenic
TAGGGCTTAAACCTTCGTTT+GGG 0.473259 3:+89598817 None:intergenic
TCCAAAGAGATGAAGCAATT+GGG 0.489224 3:-89598732 MsG0380016934.01.T01:intron
GCTATTGGAAATTGAACAGA+TGG 0.508445 3:+89598423 None:intergenic
AAATGAAACAGATGTTAGAA+AGG 0.526185 3:-89598770 MsG0380016934.01.T01:CDS
ACTTCCTATTGCAGTTGCCG+TGG 0.541016 3:-89598604 MsG0380016934.01.T01:CDS
CTTCCTATTGCAGTTGCCGT+GGG 0.547663 3:-89598603 MsG0380016934.01.T01:CDS
TTTGTGGTGCTCCCAAACGA+AGG 0.633347 3:-89598828 MsG0380016934.01.T01:CDS
TGCAAGAACTACAACTCCCA+CGG 0.635141 3:+89598587 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGTCAAAAACAAAAATAAT+GGG + Chr3:89598548-89598567 None:intergenic 15.0%
!! TATGTCAAAAACAAAAATAA+TGG + Chr3:89598549-89598568 None:intergenic 15.0%
!!! TTCATGTTCTTTTGTTTATT+TGG - Chr3:89598723-89598742 MsG0380016934.01.T01:intron 20.0%
! AAAGAACATGAATGCATTAA+AGG + Chr3:89598715-89598734 None:intergenic 25.0%
! AAATGAAACAGATGTTAGAA+AGG - Chr3:89598432-89598451 MsG0380016934.01.T01:exon 25.0%
! TTTATTATGCTAATGTCAAC+AGG - Chr3:89598570-89598589 MsG0380016934.01.T01:CDS 25.0%
!!! CAAAAACAAAAATAATGGGT+AGG + Chr3:89598544-89598563 None:intergenic 25.0%
AGGCAAAAAGAAAATGACTA+TGG + Chr3:89598504-89598523 None:intergenic 30.0%
ATTGAACAGATGGAACTAAA+AGG + Chr3:89598772-89598791 None:intergenic 30.0%
AACATTCTTGTGCAAGCTAT+TGG + Chr3:89598797-89598816 None:intergenic 35.0%
AGGAGTGAACATATTAAGCA+AGG + Chr3:89598524-89598543 None:intergenic 35.0%
GCTATTGGAAATTGAACAGA+TGG + Chr3:89598782-89598801 None:intergenic 35.0%
TCCAAAGAGATGAAGCAATT+GGG - Chr3:89598470-89598489 MsG0380016934.01.T01:exon 35.0%
TTGTTGACATCTGTTGCATA+GGG + Chr3:89598406-89598425 None:intergenic 35.0%
TTTGTTGACATCTGTTGCAT+AGG + Chr3:89598407-89598426 None:intergenic 35.0%
ACCCAATTGCTTCATCTCTT+TGG + Chr3:89598474-89598493 None:intergenic 40.0%
ATAGGGCTTAAACCTTCGTT+TGG + Chr3:89598389-89598408 None:intergenic 40.0%
CTCCAAAGAGATGAAGCAAT+TGG - Chr3:89598469-89598488 MsG0380016934.01.T01:exon 40.0%
TAGGGCTTAAACCTTCGTTT+GGG + Chr3:89598388-89598407 None:intergenic 40.0%
! AAATGGCGTTTTGCAGTTTG+TGG - Chr3:89598358-89598377 MsG0380016935.01.T01:three_prime_UTR 40.0%
TGCAAGAACTACAACTCCCA+CGG + Chr3:89598618-89598637 None:intergenic 45.0%
ACTTCCTATTGCAGTTGCCG+TGG - Chr3:89598598-89598617 MsG0380016934.01.T01:CDS 50.0%
CTTCCTATTGCAGTTGCCGT+GGG - Chr3:89598599-89598618 MsG0380016934.01.T01:CDS 50.0%
GTGGGAGTTGTAGTTCTTGC+AGG - Chr3:89598617-89598636 MsG0380016934.01.T01:intron 50.0%
TTTGTGGTGCTCCCAAACGA+AGG - Chr3:89598374-89598393 MsG0380016934.01.T01:exon 50.0%
ACTCCCACGGCAACTGCAAT+AGG + Chr3:89598605-89598624 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 89598350 89598874 89598350 ID=MsG0380016935.01;Name=MsG0380016935.01
Chr3 mRNA 89598350 89598874 89598350 ID=MsG0380016935.01.T01;Parent=MsG0380016935.01;Name=MsG0380016935.01.T01;_AED=0.43;_eAED=0.62;_QI=0|0|0.5|1|0|0|2|204|74
Chr3 exon 89598350 89598632 89598350 ID=MsG0380016935.01.T01:exon:20574;Parent=MsG0380016935.01.T01
Chr3 exon 89598729 89598874 89598729 ID=MsG0380016935.01.T01:exon:20573;Parent=MsG0380016935.01.T01
Chr3 CDS 89598729 89598874 89598729 ID=MsG0380016935.01.T01:cds;Parent=MsG0380016935.01.T01
Chr3 CDS 89598554 89598632 89598554 ID=MsG0380016935.01.T01:cds;Parent=MsG0380016935.01.T01
Chr3 three_prime_UTR 89598350 89598553 89598350 ID=MsG0380016935.01.T01:three_prime_utr;Parent=MsG0380016935.01.T01
Gene Sequence

>MsG0380016935.01.T01

TTGTCTCAAAATGGCGTTTTGCAGTTTGTGGTGCTCCCAAACGAAGGTTTAAGCCCTATGCAACAGATGTCAACAAAAAAGCAAATGAAACAGATGTTAGAAAGGCAAGAAAAGCTGAACTCCAAAGAGATGAAGCAATTGGGTGAGAAAGCACTTCCTATTGCAGTTGCCGTGGGAGTTGTAGTTCTTGCAGGATTATACTTCTATCTCAACAACACATTTTAG

Protein sequence

>MsG0380016935.01.T01

LSQNGVLQFVVLPNEGLSPMQQMSTKKQMKQMLERQEKLNSKEMKQLGEKALPIAVAVGVVVLAGLYFYLNNTF*