RetrogeneDB ID: retro_ggor_2785

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:31820934..31821615(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC25A6
• Ensembl ID: ENSGGOG00000023004
• Aliases: None
• Description: None

Sequence

>retro_ggor_2785
CAGGGCGTGCTGTCCTTCTGGAGGGGCAACCTTGCCAACGTCATCCGCTACTCCCCCACGCAAGCCCTCAATTTCGCCTT
CAAGGATAAGTACAAGCAGATCTTCCTGGCGGGCGTGGACAAGCACACGCAGTTCTGCAGGTACTTTGCGGGCAACCTGG
CCTCTGGCAGCACGGCCATCGTGTATCCCCTGGATTTCACCAGAACCCGCCTGGCAGCCGACGTGGGAAAGTCAGGCACG
GAGCGCGAGTTCCGAGGCCTGGGAGACGGCCTAGTGAAGATCAGCAAGTCTGACGGCATCCGGGGCCTTTACCAGGGCTT
CAGCGTCTCCGTGCAGGCCATCATCACCTACCAGGCAGCCTACTTCAGGGTGTACGATACGGCCAAGGGCATGTTCCCCG
ACCCCAAGCACACACACATCCTGGTGAGCTGGATGATCGCGCAGACCGTGACGGCCGTGGCTGGCGTGGTCTCCTACCCC
TTCGACACAGTGCGGCGGCGGACGATGATGCAGTCCCGGCGTAAAGGAGCTGACATCATGTACACGGGCACCGTCGACTG
TTGGAGGAAGATCTTCAGAGACGAGCGGGGCGAGGCCTTTTTCAAGGGCGTGTGGTCCAACGCCCTCAGAGGCATGGGGG
TGGGGGCGGGCTTCGTGCTGGTCCTGTACGACGAGCTGAAG

Alignment

ORF - retro_ggor_2785 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.84 %
• Parental protein coverage: 71.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QGVLSFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDKHTQFWRYFAGNLASGGAAGATSLCFVYPL
          QGVLSFWRGNLANVIRY.PTQALNFAFKDKYKQIFL.GVDKHTQF.RYFAGNL....A.G.T....VYPL
Retrocopy QGVLSFWRGNLANVIRYSPTQALNFAFKDKYKQIFLAGVDKHTQFCRYFAGNL----ASGSTAI--VYPL

Parental  DFARTRLAADVGKSGTEREFRGLGDCLVKITKSDGIRGLYQGFSVSVQGIIIYRAAYFGVYDTAKGMLPD
          DF.RTRLAADVGKSGTEREFRGLGD.LVKI.KSDGIRGLYQGFSVSVQ.II.Y.AAYF.VYDTAKGM.PD
Retrocopy DFTRTRLAADVGKSGTEREFRGLGDGLVKISKSDGIRGLYQGFSVSVQAIITYQAAYFRVYDTAKGMFPD

Parental  PKNTHIVVSWMIAQTVTAVAGVVSYPFDTVRRRMMMQSGRKGADIMYTGTVDCWRKIFRDEGGKAFFKGA
          PK.THI.VSWMIAQTVTAVAGVVSYPFDTVRRR.MMQS.RKGADIMYTGTVDCWRKIFRDE.G.AFFKG.
Retrocopy PKHTHILVSWMIAQTVTAVAGVVSYPFDTVRRRTMMQSRRKGADIMYTGTVDCWRKIFRDERGEAFFKGV

Parental  WSNVLRGM--GGAFVLVLYDELK
          WSN.LRGM..G..FVLVLYDELK
Retrocopy WSNALRGMGVGAGFVLVLYDELK

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	223.08 RPM
SRP007412_cerebellum	0.00 RPM	203.69 RPM
SRP007412_heart	0.03 RPM	158.54 RPM
SRP007412_kidney	0.04 RPM	279.56 RPM
SRP007412_liver	0.03 RPM	73.28 RPM
SRP007412_testis	0.00 RPM	87.54 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_2785 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2785 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000005609	1 retrocopy	retro_amel_255,
Homo sapiens	ENSG00000169100	5 retrocopies	retro_hsap_1207, retro_hsap_150, retro_hsap_2460, retro_hsap_4147, retro_hsap_4207,
Gorilla gorilla	ENSGGOG00000014279	8 retrocopies	retro_ggor_1673, retro_ggor_1674, retro_ggor_2146, retro_ggor_2377, retro_ggor_2512, retro_ggor_2517, retro_ggor_2840, retro_ggor_941,
Gorilla gorilla	ENSGGOG00000023004	2 retrocopies	retro_ggor_239, retro_ggor_2785 ,
Loxodonta africana	ENSLAFG00000001584	1 retrocopy	retro_lafr_713,
Microcebus murinus	ENSMICG00000006136	2 retrocopies	retro_mmur_1021, retro_mmur_922,
Macaca mulatta	ENSMMUG00000006899	1 retrocopy	retro_mmul_1182,
Nomascus leucogenys	ENSNLEG00000000389	1 retrocopy	retro_nleu_895,
Otolemur garnettii	ENSOGAG00000000963	2 retrocopies	retro_ogar_2492, retro_ogar_2499,