RetrogeneDB ID: retro_tgut_10

Retrocopy location

• Organism: Zebrafinch (Taeniopygia guttata)
• Coordinates: 4:47844252..47844828(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTGUG00000008717
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTGUG00000010772
• Aliases: None
• Description: None

Sequence

>retro_tgut_10
ATGCTGGATTCAGTCAAGTGTGTTCTGGTGGGAGACTCTGCGGTTGGGAAAACATCTCTCTTGGTACGTTTTACCTCTGA
GACTTTTCCAGATGACTACAGACCCACTGTATATGAAAATACTGGAGTGGATGTCTTCATGGATGGCGTACAGATCAGCT
TAGGTCTTTGGGACACATCTGGCAGTGATGCCTTTAAAAGCATTCGCCCCCTCTCCTACCAACAGGCAGATGTGGTATTA
ATGTGCTATTCGGTGGCAAACCATAATTCCTTTCTGAACCTGAGGAACAAATGGATCAGCGAGATCCGCAGCCATTTGCC
CCGCATCCCTGTTTTGGTGGTGGCCACTCAGACTGACCAGCGTGACATGGGTCCCTACAGTTCCTCCTGCATCAGCCCTA
TAGATGGGAAGCGGCTCGCCCAGGACGTGCGAGCCAAAGGCTATTTGGAGTGCTCCGCCCTCAGCAACAGGGGCGTGCAG
CAGGTGTTTGAGTATGCCGTGCGGACAGCGGTCAATCAAGCCAAAAGGCAGAACAGGCGGAAGCTCTTCTCCATTAATGA
GTGCAAGATCTTTTGA

Alignment

ORF - retro_tgut_10 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.54 %
• Parental protein coverage: 51.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IKCVLVGDGAVGKTSLVVSYTTNGYPDEYQPTALDTFSVQVLVDGAPVRIQLWDTAGQEDFDCLRSLCYP
          .KCVLVGD.AVGKTSL.V..T....PD.Y.PT......V.V..DG......LWDT.G...F...R.L.Y.
Retrocopy VKCVLVGDSAVGKTSLLVRFTSETFPDDYRPTVYENTGVDVFMDGVQISLGLWDTSGSDAFKSIRPLSYQ

Parental  DTDVFLVCFSVVNPSSFQNITEKWIPEIRTHNPRAPVLLVGTQADLRD
          ..DV.L.C.SV.N..SF.N...KWI.EIR.H.PR.PVL.V.TQ.D.RD
Retrocopy QADVVLMCYSVANHNSFLNLRNKWISEIRSHLPRIPVLVVATQTDQRD

Legend:

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

Expression

RNA-Seq

Taeniopygia guttata was not studied using RNA-Seq expression data.

ChIP-Seq

Taeniopygia guttata was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tgut_10 retrocopy.

TSS

Taeniopygia guttata was not studied using FANTOM5 data.

Lab

retro_tgut_10 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_tgut_10 has 1 orthologous retrocopies within neognath group .

Species	RetrogeneDB ID
Gallus gallus	retro_ggal_1

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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 ,