AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0905570


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0905570 MtrunA17_Chr6g0453441 98.630 73 1 0 1 73 1 73 1.27e-45 140
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0905570 AT3G29034.1 46.575 73 38 1 2 73 14 86 2.54e-15 64.3

Find 12 sgRNAs with CRISPR-Local

Find 15 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCACTTCTGATTGGATTAAT+TGG 0.161988 6_2:+3747885 Msa0905570:CDS
GGTCTCCTTGTTCTCATGTT+GGG 0.333045 6_2:+3747972 Msa0905570:CDS
GGTTTGTGAGTAAGCAAATA+AGG 0.351967 6_2:-3747919 None:intergenic
AACACAAAAGCACTTCTGAT+TGG 0.397640 6_2:+3747876 Msa0905570:CDS
CTCATGTTGGGATTGCTTGT+AGG 0.435942 6_2:+3747984 Msa0905570:CDS
TGGTCTCCTTGTTCTCATGT+TGG 0.439787 6_2:+3747971 Msa0905570:CDS
GCTTTGACTTGGTGATATGA+AGG 0.513847 6_2:-3747940 None:intergenic
CCAAGTCAAAGCATCACAAT+TGG 0.514348 6_2:+3747951 Msa0905570:CDS
CCAATTGTGATGCTTTGACT+TGG 0.515642 6_2:-3747951 None:intergenic
TTGGGATTGCTTGTAGGAGA+AGG 0.548891 6_2:+3747990 Msa0905570:CDS
GCAATCCCAACATGAGAACA+AGG 0.621689 6_2:-3747977 None:intergenic
AAAACAAGGATGAATTACAA+AGG 0.662210 6_2:-3748020 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTCTTCTCTTCCTTCTTTTT+TGG - chr6_2:3747843-3747862 None:intergenic 30.0%
AATCCCTCATCCAAAAAAGA+AGG + chr6_2:3747830-3747849 Msa0905570:CDS 35.0%
!!! CTTCCTTCTTTTTTGGATGA+GGG - chr6_2:3747836-3747855 None:intergenic 35.0%
!!! TCTTCCTTCTTTTTTGGATG+AGG - chr6_2:3747837-3747856 None:intergenic 35.0%
!! AACACAAAAGCACTTCTGAT+TGG + chr6_2:3747876-3747895 Msa0905570:CDS 35.0%
GCACTTCTGATTGGATTAAT+TGG + chr6_2:3747885-3747904 Msa0905570:CDS 35.0%
GGTTTGTGAGTAAGCAAATA+AGG - chr6_2:3747922-3747941 None:intergenic 35.0%
!! GCTTTGACTTGGTGATATGA+AGG - chr6_2:3747943-3747962 None:intergenic 40.0%
CCAATTGTGATGCTTTGACT+TGG - chr6_2:3747954-3747973 None:intergenic 40.0%
! CCAAGTCAAAGCATCACAAT+TGG + chr6_2:3747951-3747970 Msa0905570:CDS 40.0%
TGGTCTCCTTGTTCTCATGT+TGG + chr6_2:3747971-3747990 Msa0905570:CDS 45.0%
GGTCTCCTTGTTCTCATGTT+GGG + chr6_2:3747972-3747991 Msa0905570:CDS 45.0%
GCAATCCCAACATGAGAACA+AGG - chr6_2:3747980-3747999 None:intergenic 45.0%
CTCATGTTGGGATTGCTTGT+AGG + chr6_2:3747984-3748003 Msa0905570:CDS 45.0%
TTGGGATTGCTTGTAGGAGA+AGG + chr6_2:3747990-3748009 Msa0905570:CDS 45.0%
Chromosome Type Strat End Strand Name
chr6_2 gene 3747807 3748028 3747807 ID=Msa0905570;Name=Msa0905570
chr6_2 mRNA 3747807 3748028 3747807 ID=Msa0905570-mRNA-1;Parent=Msa0905570;Name=Msa0905570-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|73
chr6_2 exon 3747807 3748028 3747807 ID=Msa0905570-mRNA-1:exon:1130;Parent=Msa0905570-mRNA-1
chr6_2 CDS 3747807 3748028 3747807 ID=Msa0905570-mRNA-1:cds;Parent=Msa0905570-mRNA-1
Gene Sequence

>Msa0905570

ATGAAGTCAAAAAAGAAAGTTCAAATCCCTCATCCAAAAAAGAAGGAAGAGAAGAAGAAAATGAGTCAAAACACAAAAGCACTTCTGATTGGATTAATTGGTGCAGCTTTTACCTTATTTGCTTACTCACAAACCTTCATATCACCAAGTCAAAGCATCACAATTGGTCTCCTTGTTCTCATGTTGGGATTGCTTGTAGGAGAAGGTCTTATACCTTTGTAA

Protein sequence

>Msa0905570

MKSKKKVQIPHPKKKEEKKKMSQNTKALLIGLIGAAFTLFAYSQTFISPSQSITIGLLVLMLGLLVGEGLIPL*