AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1218890


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 18 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCGACCACCACCTTCATTT+TGG 0.215725 8_1:-81573035 None:intergenic
AACTCATGAATGCAAATATA+TGG 0.283539 8_1:+81572994 Msa1218890:CDS
ATAGTGAAATCTCAACAATT+AGG 0.406454 8_1:+81572963 Msa1218890:CDS
TATGGATTACATGTCACTTT+GGG 0.416476 8_1:+81573012 Msa1218890:CDS
CACTGTCTGGCTCAGCACTA+AGG 0.437237 8_1:-81572940 None:intergenic
GAGATTTCACTATCACTGTC+TGG 0.441520 8_1:-81572953 None:intergenic
ATATGGATTACATGTCACTT+TGG 0.465764 8_1:+81573011 Msa1218890:CDS
ACTGTCTGGCTCAGCACTAA+GGG 0.489883 8_1:-81572939 None:intergenic
TCAAATCTGTTGCTTAAAGA+AGG 0.495285 8_1:-81573064 None:intergenic
CAGATGTTGCAGCTTTCAAA+CGG 0.520476 8_1:-81573102 None:intergenic
GTCACTTTGGGCCAAAATGA+AGG 0.521305 8_1:+81573024 Msa1218890:CDS
TTTGCATTCATGAGTTACTT+CGG 0.543915 8_1:-81572987 None:intergenic
GCCAAAATGAAGGTGGTGGT+CGG 0.582464 8_1:+81573034 Msa1218890:CDS
TTGGGCCAAAATGAAGGTGG+TGG 0.598688 8_1:+81573030 Msa1218890:CDS
CTGTTGCTTAAAGAAGGTAG+AGG 0.637500 8_1:-81573058 None:intergenic
TCGTTGAGTTTAAGGCGAGG+CGG 0.721081 8_1:-81573131 None:intergenic
ACTTCGTTGAGTTTAAGGCG+AGG 0.734213 8_1:-81573134 None:intergenic
ACTTTGGGCCAAAATGAAGG+TGG 0.741537 8_1:+81573027 Msa1218890:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATATTGATTGTCTAAATTAA+TGG + chr8_1:81572821-81572840 Msa1218890:intron 15.0%
!! ACAATCAATATAGTTTCATA+TGG - chr8_1:81572812-81572831 None:intergenic 20.0%
! GAAATCATATAATGTGCTTA+AGG - chr8_1:81572770-81572789 None:intergenic 25.0%
! GCACATTATATGATTTCATT+AGG + chr8_1:81572773-81572792 Msa1218890:intron 25.0%
! ATAGTGAAATCTCAACAATT+AGG + chr8_1:81572963-81572982 Msa1218890:CDS 25.0%
! AACTCATGAATGCAAATATA+TGG + chr8_1:81572994-81573013 Msa1218890:CDS 25.0%
GAAATAATTGCTGTCATCTT+TGG - chr8_1:81572748-81572767 None:intergenic 30.0%
AATATAGTTTCATATGGTGC+TGG - chr8_1:81572806-81572825 None:intergenic 30.0%
TTTGCATTCATGAGTTACTT+CGG - chr8_1:81572990-81573009 None:intergenic 30.0%
! ATATGGATTACATGTCACTT+TGG + chr8_1:81573011-81573030 Msa1218890:CDS 30.0%
!! TATGGATTACATGTCACTTT+GGG + chr8_1:81573012-81573031 Msa1218890:CDS 30.0%
! TCAAATCTGTTGCTTAAAGA+AGG - chr8_1:81573067-81573086 None:intergenic 30.0%
CCTATGTTACATGACGATCT+GGG + chr8_1:81572878-81572897 Msa1218890:intron 40.0%
GAGATTTCACTATCACTGTC+TGG - chr8_1:81572956-81572975 None:intergenic 40.0%
! CTGTTGCTTAAAGAAGGTAG+AGG - chr8_1:81573061-81573080 None:intergenic 40.0%
CAGATGTTGCAGCTTTCAAA+CGG - chr8_1:81573105-81573124 None:intergenic 40.0%
GCCTATGTTACATGACGATC+TGG + chr8_1:81572877-81572896 Msa1218890:intron 45.0%
CCCAGATCGTCATGTAACAT+AGG - chr8_1:81572881-81572900 None:intergenic 45.0%
! GTCACTTTGGGCCAAAATGA+AGG + chr8_1:81573024-81573043 Msa1218890:CDS 45.0%
ACTTTGGGCCAAAATGAAGG+TGG + chr8_1:81573027-81573046 Msa1218890:CDS 45.0%
AGGGGTCAATACACTTCGCA+AGG - chr8_1:81572914-81572933 None:intergenic 50.0%
! ACTGTCTGGCTCAGCACTAA+GGG - chr8_1:81572942-81572961 None:intergenic 50.0%
TTGGGCCAAAATGAAGGTGG+TGG + chr8_1:81573030-81573049 Msa1218890:CDS 50.0%
! GCCAAAATGAAGGTGGTGGT+CGG + chr8_1:81573034-81573053 Msa1218890:CDS 50.0%
! ACCGACCACCACCTTCATTT+TGG - chr8_1:81573038-81573057 None:intergenic 50.0%
TCAGCACTAAGGGCTGTGAG+GGG - chr8_1:81572932-81572951 None:intergenic 55.0%
CTCAGCACTAAGGGCTGTGA+GGG - chr8_1:81572933-81572952 None:intergenic 55.0%
! CACTGTCTGGCTCAGCACTA+AGG - chr8_1:81572943-81572962 None:intergenic 55.0%
GCTCAGCACTAAGGGCTGTG+AGG - chr8_1:81572934-81572953 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 81572667 81573144 81572667 ID=Msa1218890;Name=Msa1218890
chr8_1 mRNA 81572667 81573144 81572667 ID=Msa1218890-mRNA-1;Parent=Msa1218890;Name=Msa1218890-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|0|0|0.5|0|0|2|0|70
chr8_1 exon 81572667 81572673 81572667 ID=Msa1218890-mRNA-1:exon:28903;Parent=Msa1218890-mRNA-1
chr8_1 exon 81572939 81573144 81572939 ID=Msa1218890-mRNA-1:exon:28904;Parent=Msa1218890-mRNA-1
chr8_1 CDS 81572667 81572673 81572667 ID=Msa1218890-mRNA-1:cds;Parent=Msa1218890-mRNA-1
chr8_1 CDS 81572939 81573144 81572939 ID=Msa1218890-mRNA-1:cds;Parent=Msa1218890-mRNA-1
Gene Sequence

>Msa1218890

ATGTTAACCCTTAGTGCTGAGCCAGACAGTGATAGTGAAATCTCAACAATTAGGACCGAAGTAACTCATGAATGCAAATATATGGATTACATGTCACTTTGGGCCAAAATGAAGGTGGTGGTCGGTCCTCTACCTTCTTTAAGCAACAGATTTGAGATTCTGTTACACAGCCGTTTGAAAGCTGCAACATCTGTATGTGCCGCCTCGCCTTAA

Protein sequence

>Msa1218890

MLTLSAEPDSDSEISTIRTEVTHECKYMDYMSLWAKMKVVVGPLPSLSNRFEILLHSRLKAATSVCAASP*