RetrogeneDB ID: retro_ggor_307

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:146700815..146701572(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKR1D1
• Ensembl ID: ENSGGOG00000014684
• Aliases: None
• Description: None

Sequence

>retro_ggor_307
TCTTCATCAGTGAAGGTTGTCATTGGTCTGGGGTGCTGACACACTGATGAAGCCTACATATACCAAAATGAAGACACAGC
TGGGGAGGCCATCAGGGGGAAAATAGCAGAAGGAAAGGTGCAGAGGAAGGATATCTTCTACTGCGGAAAACTGTGGGCTA
CAAATCACAACCCAGAGCTGGTCTGCCCAAGCCTAGAGAGGATGCTCAAGGTCCTCCAGCTAGATTGTGTGGATCTTTAC
ATCATTGAAATACCCATGGCCACTAAGCCAGAAGATGGAATCTACCCTATAGGTGAGAATGGCAAATGGTTATATCACAA
GTCAAATCTGTGTACCACTTGGGAGACTTCGGAAGCTTGTAAAGATGCTGGCTTGGTGAAATCCCTTGGAGTATCCAGTT
TTAACAGCAGGCCAGCTGGAGCTCATCCAGAACAACCCAGGACTCAAACCCAAGCCAGTCAGCAACGAGGTTGAGTGCCA
CCCATATTACACCCAGCCAAAACTTTTGAAATTTTGCCAACAACATGACATTGTCATGATTGCATATAGCCCTTTGGGGA
CCACTAGGAATCCAACCTGGACAAATATGTCTTCTCCACCTTCGTTAAAGGATGCACTTCTAAAAAGGTGGAATAAGATC
ACAGCTCAAGTTATTTTGCGTTTCAACATCCAGCGAGGGGTGGCTGTCATTCCTAAAAGCTTTAATCCTGAAAAGATCAA
GGAAAACCTTCAGGCCTTTGACTTTTCTCTCACTGAA

Alignment

ORF - retro_ggor_307 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.26 %
• Parental protein coverage: 78.53 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ATSVKVAIDTGYRHIDGAYIYQNEHEVGEAIREKIAEGKVRREDIFYCGKLWATNHVPEMVRPTLERTLR
          ..SVKV.I..G..H.D.AYIYQNE...GEAIR.KIAEGKV.R.DIFYCGKLWATNH.PE.V.P.LER.L.
Retrocopy SSSVKVVIGLGC*HTDEAYIYQNEDTAGEAIRGKIAEGKVQRKDIFYCGKLWATNHNPELVCPSLERMLK

Parental  VLQLDYVDLYIIEVPMAFKPGDEVYPRDENGKWLYHKSNLCATWEAMEACKDAGLVKSLGVSNFNRR-QL
          VLQLD.VDLYIIE.PMA.KP.D..YP..ENGKWLYHKSNLC.TWE..EACKDAGLVKSLGVS.FN.R.QL
Retrocopy VLQLDCVDLYIIEIPMATKPEDGIYPIGENGKWLYHKSNLCTTWETSEACKDAGLVKSLGVSSFNSR>QL

Parental  ELILNKPGLKHKPVSNQVECHPYFTQPKLLKFCQQHDIVITAYSPLGTSRNPIWVNVSSPPLLKDALLNS
          ELI.N.PGLK.KPVSN.VECHPY.TQPKLLKFCQQHDIV..AYSPLGT.RNP.W.N.SSPP.LKDALL..
Retrocopy ELIQNNPGLKPKPVSNEVECHPYYTQPKLLKFCQQHDIVMIAYSPLGTTRNPTWTNMSSPPSLKDALL--

Parental  LGKRYNKTAAQIVLRFNIQRGVVVIPKSFNLERIKENFQIFDFSLTE
          ..KR.NK..AQ..LRFNIQRGV.VIPKSFN.E.IKEN.Q.FDFSLTE
Retrocopy --KRWNKITAQVILRFNIQRGVAVIPKSFNPEKIKENLQAFDFSLTE

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	0.00 RPM
SRP007412_cerebellum	0.04 RPM	0.28 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	120.36 RPM
SRP007412_testis	0.00 RPM	3.00 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_307 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_307 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_257
Pan troglodytes	retro_ptro_217
Pongo abelii	retro_pabe_406

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012872	1 retrocopy	retro_cjac_1688,
Homo sapiens	ENSG00000122787	1 retrocopy	retro_hsap_257,
Gorilla gorilla	ENSGGOG00000011731	6 retrocopies	retro_ggor_1477, retro_ggor_1859, retro_ggor_2948, retro_ggor_343, retro_ggor_695, retro_ggor_991,
Gorilla gorilla	ENSGGOG00000014684	1 retrocopy	retro_ggor_307 ,
Nomascus leucogenys	ENSNLEG00000013710	1 retrocopy	retro_nleu_860,
Pongo abelii	ENSPPYG00000018037	1 retrocopy	retro_pabe_406,
Pan troglodytes	ENSPTRG00000019740	1 retrocopy	retro_ptro_217,
Rattus norvegicus	ENSRNOG00000013004	1 retrocopy	retro_rnor_2559,