RetrogeneDB ID: retro_tgut_3

Retrocopy location

• Organism: Zebrafinch (Taeniopygia guttata)
• Coordinates: 2:54779031..54779592(-)
• Located in intron of: ENSTGUG00000003159

Retrocopy information

• Ensembl ID: ENSTGUG00000018274
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTGUG00000009556
• Aliases: None
• Description: None

Sequence

>retro_tgut_3
TGTGTGTGTGTCTGTGTGTGTGTGTGGCTGTGTGTGTCTGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGCCTGTGTGTG
TGTGTGTGTGTGTGTGTCTGTGTGTCTGTGTGTCTGTGTGTCTGTGTGTGTGTGTGTGTGTCTGTGTGTGTGTGTCTGTG
TGTCTGTGTGTCTGTGTGTGTCTGTGTGTGTGTGTGTGTGTCTGTGTGTGTGTCTGTGTGTCTGTGTGTGTGTGTGTCTG
TGTGTGTCTGTGTGTGTGTGTGTCTGTGTGTGTCTGTGTGTGTCTGTGTGTGTGTGTCTCTGTGTGTGTCTGTGTGTGTC
TGTCTGTGTGTGTCTGTCTGTGTGTCTCTGTGTGTGTGTGTGTGTGTGTCTGTGTGTCTGTCTGTGTGTGTGTCTGTGTG
TCTGTGTGTCTGTGTGTCTGTGTATGTCTGTATGTCTGTGTATGTCTGTGTGTCTGTGTATGTGTGTGTCTGTGTGTCTG
TGGGTGTCTGTGTCGGTGTGTGTTTGTGTGTGTCTGTGTGTGTGCGCGTGTCTGTGTGTCTGTGTGTGTCTGTGTGTGTG
T

Alignment

ORF - retro_tgut_3 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.27 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VSVSVC--PCPCPCVRVSVCPCVRVSVPVSVCPCVLVSVCPCPCVRSVCPCLCLCPCPC-CPCARVRESV
          V.V.VC...C.C.CV.VSVC.CV.VSV.V.VC.CV.V.V..C.CV.SVC.C.CLC.C.C.C.C.....SV
Retrocopy VCVCVCVCACVCVCVCVSVCLCVCVSVCVCVCLCVCVCVSVCLCV-SVCVCVCLCVCLCVCVCVCLCVSV

Parental  CPCVRVSVCLCVRVSVCPCVCVSVCPCVRVSVPMCPCVRVPVCPCPCVRARVCVSVPVSMCPCVHVSVCP
          C.C..V.VCLCV.V.VC.CVC..V..CV..SV..C.CV.V..C.C.CV...VCVSV...M..C...SVC.
Retrocopy CVC--VCVCLCVSVCVCLCVCLCVSVCVCLSVCLCVCVCVCLCVCLCVCLCVCVSVCLCMSVCLCMSVC-

Parental  FPCPCVRMCVCPSVRVSVSVCPCV
          ..C.CV..C...SV.V.V.VC.CV
Retrocopy -LCMCVSVCLWVSVSVCVCVCLCV

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_3 retrocopy.

TSS

Taeniopygia guttata was not studied using FANTOM5 data.

Lab

retro_tgut_3 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_tgut_3 has 0 orthologous retrocopies within neognath group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Taeniopygia guttata	ENSTGUG00000009556	1 retrocopy	retro_tgut_3 ,