RetrogeneDB ID: retro_gacu_18

Retrocopy location

• Organism: Stickleback (Gasterosteus aculeatus)
• Coordinates: groupVII:11969110..11969264(+)
• Located in intron of: ENSGACG00000020129

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGACG00000006261
• Aliases: None
• Description: None

Sequence

>retro_gacu_18
TTGTTACCTAGAGTCTTAAAAAGTAGGATTGGAGCCAGAACCTTCAGTCACCAATCGTCTCTTCTGTCAGACCAGCTTCT
ACTTTCAGTCTGGGGGGGCAGACACAGTCAGCTCATTTAAGACGAGGCTTATGGTTTTCCTCTTGTCTGGCTCA

Alignment

ORF - retro_gacu_18 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.77 %
• Parental protein coverage: 51. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VVPRVLKSRMGARAFSYQDPLLSSQLPLSV-RGADSVSNWHSCVSSPLISTS
          ..PRVLKSR.GAR.FS.Q..LLS.QL.LSV..GAD.VS.........L.S.S
Retrocopy LLPRVLKSRIGARTFSHQSSLLSDQLLLSV>GGADTVSSFKTRLMVFLLSGS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Gasterosteus aculeatus was not studied using RNA-Seq expression data.

ChIP-Seq

Gasterosteus aculeatus was not studied using ChIP-Seq data.

EST

Gasterosteus aculeatus was not studied using EST data.

TSS

Gasterosteus aculeatus was not studied using FANTOM5 data.

Lab

retro_gacu_18 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_gacu_18 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Gasterosteus aculeatus	ENSGACG00000006261	1 retrocopy	retro_gacu_18 ,