RetrogeneDB ID: retro_psin_18

Retrocopy location

• Organism: Chinese softshell turtle (Pelodiscus sinensis)
• Coordinates: JH210475.1:794864..795440(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSPSIG00000001595
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: RHOV
• Ensembl ID: ENSPSIG00000014195
• Aliases: None
• Description: ras homolog family member V [Source:HGNC Symbol;Acc:18313]

Sequence

>retro_psin_18
ATGCTGGATTCAATCAAATGTGTGTTGGTGGGAGATGCTGCCGTGGGGAAAACATCACTCTTGGTACGTTTCACCTCTGA
GACTTTTCCAGATGCCTACAAGCCCACAGTGTATGAAAACACAGGGGTGGATGTCTTCATGGATGGTGTTCAGATTAGCC
TAGGCCTTTGGGACACAGCGGGCAGTGATGCATTCAGAGGCATCCGCCCCATCTCATACCAACAGGCTGATGTGGTGTTA
ATGTGTTATTCAGTGGCCAACCACAACTCCTTTTTAAACCTGAGGAATAAATGGATTGGTGAGATCAGAAACCATTTGCC
CCGAACCCCGGTTTTAGTGGTGGCCACTCAGACTGACCAGCGGGAAACAGGACCCCATCATTTATCCTGCATCAGCTCAG
TTGATGGGAAGCGGTTGGCCCGAGAAGTCCGAGCTAAAGGCTACTTGGAGTGTTCTTCTCTCAGCAACAGGGGAGTGCAG
CAGGTGTTTGAGTACGCTGTCCGAACCGCAGTCAATCAAGCCCGAAAACAGAAGAGGAGGAAACTCTTCTCCGTTAACGA
ATGCAGGATCTTTTGA

Alignment

ORF - retro_psin_18 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.85 %
• Parental protein coverage: 51.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IKCVLVGDGAVGKTSLIISYTTNGYPDEYEPTALDTFSVQVLVDGAPVRIQLWDTAGQEDFDSLRSLCYH
          IKCVLVGD.AVGKTSL....T....PD.Y.PT......V.V..DG......LWDTAG...F...R...Y.
Retrocopy IKCVLVGDAAVGKTSLLVRFTSETFPDAYKPTVYENTGVDVFMDGVQISLGLWDTAGSDAFRGIRPISYQ

Parental  DTDVFLVCFSVVNPSSFQNITEKWIPEIRTHNPQAPVLLVGTQADLRD
          ..DV.L.C.SV.N..SF.N...KWI.EIR.H.P..PVL.V.TQ.D.R.
Retrocopy QADVVLMCYSVANHNSFLNLRNKWIGEIRNHLPRTPVLVVATQTDQRE

Legend:

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

Expression

RNA-Seq

Pelodiscus sinensis was not studied using RNA-Seq expression data.

ChIP-Seq

Pelodiscus sinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_psin_18 retrocopy.

TSS

Pelodiscus sinensis was not studied using FANTOM5 data.

Lab

retro_psin_18 was not experimentally validated.

Homology

Retrocopy orthology:

Pelodiscus sinensis does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Gallus gallus	ENSGALG00000028047	1 retrocopy	retro_ggal_1,
Pelodiscus sinensis	ENSPSIG00000014195	1 retrocopy	retro_psin_18 ,
Taeniopygia guttata	ENSTGUG00000010772	1 retrocopy	retro_tgut_10,