RetrogeneDB ID: retro_ggor_268

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:95203898..95204338(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZFAND1
• Ensembl ID: ENSGGOG00000023665
• Aliases: None
• Description: None

Sequence

>retro_ggor_268
AAACATAAATTTTACCCATGCTCATTCAAGGACCGTGTTGAAAAACTTGTGGCAGTTATACGTCCTTACTGTGAGAATAA
TTTTTGCCTGAGACACCATCATCAGTCAGATCACAAGTGTGAAAAACTGGAAATCCCAAAGCCTTACATGACTGCCACTC
AGTAACTTGTTAAAGACATTGATTCCAAAACAGGAGAGACAGCAAGCAAACAAGGGAAAGGTGACAAAAAATAGTGAAAC
AGCTGCAAAGGAACTGCATTGAAATTGAGGATATATGCTGATGGAGATATATCACTGCCACAGGAAGAAACTATTTGCTT
TCAAGTTCTCTTACCTAAGGGGAGCAAAGAGAAGGGCAAACCAATGTTCTTTTCCATGGATGAAGCATCAGAAAGGTCAC
AAACTTTGCCACTTCTCTGGCCAGTCTTAAAGATGACAAT

Alignment

ORF - retro_ggor_268 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.05 %
• Parental protein coverage: 55.19 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QHTSYPCSFKDCAERELVAVICPYCEKNFCLRHRHQSDHECEKLEIPKPRMAATQKLVKDIIDSKTGETA
          .H..YPCSFKD..E..LVAVI.PYCE.NFCLRH.HQSDH.CEKLEIPKP.M.ATQ.LVKD.IDSKTGETA
Retrocopy KHKFYPCSFKDRVEK-LVAVIRPYCENNFCLRHHHQSDHKCEKLEIPKPYMTATQ*LVKD-IDSKTGETA

Parental  SKRRKG-AKNSETAAKV-ALMKLKMHADGDKSLPQTERIYFQVFLPKGSKEKSKPMFFC-HRWSIGKAID
          SK..KG..KNSETAAK.....KL...ADGD.SLPQ.E.I.FQV.LPKGSKEK.KPMFF..H..SI.K...
Retrocopy SKQGKG>TKNSETAAKE<TALKLRIYADGDISLPQEETICFQVLLPKGSKEKGKPMFFS<HG*SIRKVTN

Parental  FAASLARLKNDN
          FA.SLA.LK.DN
Retrocopy FATSLASLKDDN

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	0.00 RPM	7.29 RPM
SRP007412_cerebellum	0.08 RPM	6.54 RPM
SRP007412_heart	0.00 RPM	1.69 RPM
SRP007412_kidney	0.04 RPM	10.55 RPM
SRP007412_liver	0.05 RPM	11.11 RPM
SRP007412_testis	0.00 RPM	8.29 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_268 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_268 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_187
Macaca mulatta	retro_mmul_394

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000014075	1 retrocopy	retro_cpor_312,
Homo sapiens	ENSG00000104231	1 retrocopy	retro_hsap_187,
Gorilla gorilla	ENSGGOG00000023665	1 retrocopy	retro_ggor_268 ,
Microcebus murinus	ENSMICG00000016889	1 retrocopy	retro_mmur_1073,
Macaca mulatta	ENSMMUG00000002626	1 retrocopy	retro_mmul_394,
Mus musculus	ENSMUSG00000039795	1 retrocopy	retro_mmus_2093,
Nomascus leucogenys	ENSNLEG00000002584	1 retrocopy	retro_nleu_997,
Otolemur garnettii	ENSOGAG00000009813	2 retrocopies	retro_ogar_2608, retro_ogar_514,
Tupaia belangeri	ENSTBEG00000015393	1 retrocopy	retro_tbel_3648,