AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0582860


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0582860 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0582860 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0582860 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0582860 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
Msa0582860 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 4_2:+1265129 Msa0582860:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 4_2:+1265025 Msa0582860:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 4_2:-1265171 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 4_2:-1265119 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 4_2:+1265165 Msa0582860:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 4_2:+1265141 Msa0582860:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 4_2:+1265161 Msa0582860:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 4_2:-1265111 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 4_2:-1265037 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 4_2:-1265020 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 4_2:+1265041 Msa0582860:five_prime_UTR
ATATCGACGTGGTGATCAGT+TGG 0.572503 4_2:+1265212 Msa0582860:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 4_2:+1265179 Msa0582860:CDS
GCATATTTACAATATCGACG+TGG 0.789819 4_2:+1265201 Msa0582860:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG - chr4_2:1265122-1265141 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG + chr4_2:1265129-1265148 Msa0582860:CDS 25.0%
AATTGGCAATTGACATGATA+AGG - chr4_2:1265023-1265042 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG + chr4_2:1265064-1265083 Msa0582860:intron 30.0%
GGTAATATCTATCCTTCAAT+AGG - chr4_2:1265079-1265098 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG - chr4_2:1265102-1265121 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG - chr4_2:1265103-1265122 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG - chr4_2:1265114-1265133 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG + chr4_2:1265161-1265180 Msa0582860:CDS 30.0%
AATAATCCAGCCAAAGTAAT+AGG - chr4_2:1265174-1265193 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG + chr4_2:1265179-1265198 Msa0582860:CDS 30.0%
TCATGTCAATTGCCAATTCT+TGG + chr4_2:1265025-1265044 Msa0582860:five_prime_UTR 35.0%
GAATCTCAATGACCAAGAAT+TGG - chr4_2:1265040-1265059 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG + chr4_2:1265041-1265060 Msa0582860:five_prime_UTR 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG - chr4_2:1265100-1265119 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG - chr4_2:1265101-1265120 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG + chr4_2:1265141-1265160 Msa0582860:CDS 35.0%
CTAATTCCTATTACTTTGGC+TGG + chr4_2:1265165-1265184 Msa0582860:CDS 35.0%
GCATATTTACAATATCGACG+TGG + chr4_2:1265201-1265220 Msa0582860:CDS 35.0%
ATATCGACGTGGTGATCAGT+TGG + chr4_2:1265212-1265231 Msa0582860:CDS 45.0%
Chromosome Type Strat End Strand Name
chr4_2 gene 1265018 1265239 1265018 ID=Msa0582860;Name=Msa0582860
chr4_2 mRNA 1265018 1265239 1265018 ID=Msa0582860-mRNA-1;Parent=Msa0582860;Name=Msa0582860-mRNA-1;_AED=0.21;_eAED=0.55;_QI=83|0|0|1|0|0|2|0|37
chr4_2 exon 1265018 1265062 1265018 ID=Msa0582860-mRNA-1:exon:302;Parent=Msa0582860-mRNA-1
chr4_2 exon 1265091 1265239 1265091 ID=Msa0582860-mRNA-1:exon:303;Parent=Msa0582860-mRNA-1
chr4_2 five_prime_UTR 1265018 1265062 1265018 ID=Msa0582860-mRNA-1:five_prime_utr;Parent=Msa0582860-mRNA-1
chr4_2 five_prime_UTR 1265091 1265128 1265091 ID=Msa0582860-mRNA-1:five_prime_utr;Parent=Msa0582860-mRNA-1
chr4_2 CDS 1265129 1265239 1265129 ID=Msa0582860-mRNA-1:cds;Parent=Msa0582860-mRNA-1
Gene Sequence

>Msa0582860

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0582860

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI