AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1086420


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1086420 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1086420 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086420 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086420 MtrunA17_Chr4g0016861 100.000 35 0 0 1 35 1 35 9.96e-19 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1086420 ATCG00600.1 97.222 36 1 0 1 36 1 36 2.23e-18 69.3

Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGATTGAAGTTTCTCTATT+TGG 0.115333 7_2:-87392046 Msa1086420:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 7_2:-87392150 Msa1086420:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 7_2:+87392004 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 7_2:+87392056 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 7_2:-87392010 Msa1086420:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 7_2:-87392034 Msa1086420:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 7_2:-87392014 Msa1086420:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 7_2:+87392064 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 7_2:+87392138 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 7_2:+87392155 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 7_2:-87392134 Msa1086420:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 7_2:-87391963 Msa1086420:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 7_2:-87391996 Msa1086420:CDS
GCATATTTACAATATCGACG+TGG 0.789819 7_2:-87391974 Msa1086420:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr7_2:87392062-87392081 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr7_2:87392069-87392088 Msa1086420:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr7_2:87391963-87391982 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr7_2:87392004-87392023 Msa1086420:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr7_2:87392019-87392038 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr7_2:87392042-87392061 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr7_2:87392043-87392062 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr7_2:87392054-87392073 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr7_2:87392101-87392120 Msa1086420:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr7_2:87392114-87392133 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr7_2:87392119-87392138 Msa1086420:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr7_2:87391965-87391984 Msa1086420:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr7_2:87391980-87391999 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr7_2:87391981-87392000 Msa1086420:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr7_2:87392040-87392059 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr7_2:87392041-87392060 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr7_2:87392081-87392100 Msa1086420:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr7_2:87392105-87392124 Msa1086420:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr7_2:87392141-87392160 Msa1086420:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr7_2:87392152-87392171 Msa1086420:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr7_2 gene 87391958 87392179 87391958 ID=Msa1086420;Name=Msa1086420
chr7_2 mRNA 87391958 87392179 87391958 ID=Msa1086420-mRNA-1;Parent=Msa1086420;Name=Msa1086420-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr7_2 exon 87392135 87392179 87392135 ID=Msa1086420-mRNA-1:exon:23850;Parent=Msa1086420-mRNA-1
chr7_2 exon 87391958 87392106 87391958 ID=Msa1086420-mRNA-1:exon:23849;Parent=Msa1086420-mRNA-1
chr7_2 five_prime_UTR 87392135 87392179 87392135 ID=Msa1086420-mRNA-1:five_prime_utr;Parent=Msa1086420-mRNA-1
chr7_2 five_prime_UTR 87392069 87392106 87392069 ID=Msa1086420-mRNA-1:five_prime_utr;Parent=Msa1086420-mRNA-1
chr7_2 CDS 87391958 87392068 87391958 ID=Msa1086420-mRNA-1:cds;Parent=Msa1086420-mRNA-1
Gene Sequence

>Msa1086420

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1086420

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI