AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1355030


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1355030 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1355030 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1355030 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1355030 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
Msa1355030 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 tig0014543:-695883 Msa1355030:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 tig0014543:-695987 Msa1355030:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 tig0014543:+695841 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 tig0014543:+695893 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 tig0014543:-695847 Msa1355030:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 tig0014543:-695871 Msa1355030:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 tig0014543:-695851 Msa1355030:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 tig0014543:+695901 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 tig0014543:+695975 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 tig0014543:+695992 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 tig0014543:-695971 Msa1355030:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 tig0014543:-695800 Msa1355030:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 tig0014543:-695833 Msa1355030:CDS
GCATATTTACAATATCGACG+TGG 0.789819 tig0014543:-695811 Msa1355030:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + tig0014543:695899-695918 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - tig0014543:695906-695925 Msa1355030:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + tig0014543:695800-695819 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - tig0014543:695841-695860 Msa1355030:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + tig0014543:695856-695875 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + tig0014543:695879-695898 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + tig0014543:695880-695899 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + tig0014543:695891-695910 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - tig0014543:695938-695957 Msa1355030:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + tig0014543:695951-695970 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - tig0014543:695956-695975 Msa1355030:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - tig0014543:695802-695821 Msa1355030:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + tig0014543:695817-695836 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - tig0014543:695818-695837 Msa1355030:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + tig0014543:695877-695896 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + tig0014543:695878-695897 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - tig0014543:695918-695937 Msa1355030:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - tig0014543:695942-695961 Msa1355030:intron 35.0%
GCATATTTACAATATCGACG+TGG - tig0014543:695978-695997 Msa1355030:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - tig0014543:695989-696008 Msa1355030:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
tig0014543 gene 695795 696016 695795 ID=Msa1355030;Name=Msa1355030
tig0014543 mRNA 695795 696016 695795 ID=Msa1355030-mRNA-1;Parent=Msa1355030;Name=Msa1355030-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
tig0014543 exon 695972 696016 695972 ID=Msa1355030-mRNA-1:exon:9323;Parent=Msa1355030-mRNA-1
tig0014543 exon 695795 695943 695795 ID=Msa1355030-mRNA-1:exon:9322;Parent=Msa1355030-mRNA-1
tig0014543 five_prime_UTR 695972 696016 695972 ID=Msa1355030-mRNA-1:five_prime_utr;Parent=Msa1355030-mRNA-1
tig0014543 five_prime_UTR 695906 695943 695906 ID=Msa1355030-mRNA-1:five_prime_utr;Parent=Msa1355030-mRNA-1
tig0014543 CDS 695795 695905 695795 ID=Msa1355030-mRNA-1:cds;Parent=Msa1355030-mRNA-1
Gene Sequence

>Msa1355030

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1355030

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI