RetrogeneDB ID: retro_ggor_1268

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 16:48024106..48024571(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TIPIN
• Ensembl ID: ENSGGOG00000000061
• Aliases: None
• Description: None

Sequence

>retro_ggor_1268
TTTATTGACAGAGTTGAATACCTGGGAAATGAAAAGGAAGTTCAGGCTTGTTTAAAACAAATTCGACTTGATCTCCCTAT
TTTACCTGAAGATTTTATTAGCAATAATGATGAAGTTGTGGAAAATAATGGACATGATGTAACCGCTACTGAATTAGATC
CCTTTCTGACAAACTCATCTGAAAGTGAGATATTTGCTTCTGAGTCAAGTAGAAGCCTAACAGAAGAGCAACAACAAAAA
ATTGAGAGAAATAAACAACTGGCCTTTGAAAGAAGGCAGGCAAAGCTGCTAAGTAATAGTCAGTTCCTAGGAAATGATAC
GTTAATGAATGCACCCAGGGCATAGACAGTTGAGGTTAATGCTGATGAGGATCAAAAGGAGGAGTCAACTGGATTAAGGG
AAAACATGCTAGACAATCCATGCAATGATGCTCCTGCTAATACTTTAAATGAAGCAGAGGAATTA

Alignment

ORF - retro_ggor_1268 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.41 %
• Parental protein coverage: 51.83 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FIDRVEYLGSKKEVQTCLKRIRLDVPILHEDFVSNNDEVAENNEHDVTSTELDPFLTNLSESEMFASELS
          FIDRVEYLG..KEVQ.CLK.IRLD.PIL.EDF.SNNDEV.ENN.HDVT.TELDPFLTN.SESE.FASE.S
Retrocopy FIDRVEYLGNEKEVQACLKQIRLDLPILPEDFISNNDEVVENNGHDVTATELDPFLTNSSESEIFASESS

Parental  RSLTEEQQQRIERNKQLALERRQAKMLSNSQTLGNDMLMNTPRAHTVEEVNTDEDQKEESNGLNEDILDN
          RSLTEEQQQ.IERNKQLA.ERRQAK.LSNSQ.LGND.LMN.PRA.TV.EVN.DEDQKEES.GL.E..LDN
Retrocopy RSLTEEQQQKIERNKQLAFERRQAKLLSNSQFLGNDTLMNAPRA*TV-EVNADEDQKEESTGLRENMLDN

Parental  PCNDAIANTLNEEETL
          PCNDA.ANTLNE.E.L
Retrocopy PCNDAPANTLNEAEEL

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	4.17 RPM
SRP007412_cerebellum	0.00 RPM	7.53 RPM
SRP007412_heart	0.00 RPM	0.78 RPM
SRP007412_kidney	0.00 RPM	4.78 RPM
SRP007412_liver	0.00 RPM	3.96 RPM
SRP007412_testis	0.10 RPM	19.99 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_1268 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1268 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004860	1 retrocopy	retro_chof_223,
Dasypus novemcinctus	ENSDNOG00000003177	3 retrocopies	retro_dnov_1334, retro_dnov_1481, retro_dnov_410,
Homo sapiens	ENSG00000075131	1 retrocopy	retro_hsap_4837,
Gorilla gorilla	ENSGGOG00000000061	3 retrocopies	retro_ggor_1268 , retro_ggor_2907, retro_ggor_3016,
Loxodonta africana	ENSLAFG00000026016	1 retrocopy	retro_lafr_1104,
Microcebus murinus	ENSMICG00000004386	2 retrocopies	retro_mmur_155, retro_mmur_255,
Macaca mulatta	ENSMMUG00000003695	1 retrocopy	retro_mmul_1582,
Nomascus leucogenys	ENSNLEG00000012909	1 retrocopy	retro_nleu_1336,
Pan troglodytes	ENSPTRG00000007192	2 retrocopies	retro_ptro_1145, retro_ptro_3220,
Rattus norvegicus	ENSRNOG00000043068	1 retrocopy	retro_rnor_364,