RetrogeneDB ID: retro_ggor_1527

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 20:13380573..13381200(-)
• Located in intron of: ENSGGOG00000012576

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC84
• Ensembl ID: ENSGGOG00000023065
• Aliases: None
• Description: None

Sequence

>retro_ggor_1527
CCCCAGGATTATGCACGATTCAAAAAGTCCCTGGTGAAAGACTTGGGTTCCTATGAAGAAAAAGAGGATGAGGTGACCAA
GGAGATGGCAGCTCAGATCTGTGAGGTGGAACAGAGCTGGCAGGAGGTGGTTCAGTCTGTCCTAGAGGTTGGTTTCCCTC
GGAGGATCCAGACCCCCTCAGCCAGTGCCGGGCACTTTAGTCCCTGGAAGCTGGAAGAGGATGAACAGCCAGGTAGCTTC
CAGCTCACAGCAGGCCTCCAACTTGGACCTGCCACAGCTCCAGAGCTTGACTGGATGGAGACAGGACAATCTCCGATATT
CATTGGTCATCAGGATATACCAGGAGTTGGTAACATCCACTCAGGTGCCACACCTCCCTGGATGATCCAAGATGAAGAAT
GCATCTCTGGGAACCAACAAACAGGATCGTCCTTTAAAGAATTTATTAAAGAAAAGGAAAAAGAGGAGTTGAAGGAACTT
TCCCCAAACTGAGTTGGGGCCAACTTTAATCACAGCTCCAGGACCAGTGCAGGCTGGCTGCCCTCTTTGGACCGTGTCTG
GAATAATGGATACTGTTGGCAGTTTAGGCGTCAACTCAGAACTGAAGCTGCAGCAATGAACAAGCAG

Alignment

ORF - retro_ggor_1527 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.46 %
• Parental protein coverage: 61.45 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PQDYARFKKSMVKGLDSYEEKEDEVIKEMAAQIREVEQSRQEVVRSVLE---PQAVPDPEEGSSAPRSWK
          PQDYARFKKS.VK.L.SYEEKEDEV.KEMAAQI.EVEQS.QEVV.SVLE...P.....P.........WK
Retrocopy PQDYARFKKSLVKDLGSYEEKEDEVTKEMAAQICEVEQSWQEVVQSVLEVGFPRRIQTPSASAGHFSPWK

Parental  GMNSQVASSLQQPSNLDLPP--APELDWMETGPSLTFIGHQDIPGVGNIHSGATPPWMIQDEEYIAGNQE
          ........S.Q....L.L.P..APELDWMETG.S..FIGHQDIPGVGNIHSGATPPWMIQDEE.I.GNQ.
Retrocopy LEEDEQPGSFQLTAGLQLGPATAPELDWMETGQSPIFIGHQDIPGVGNIHSGATPPWMIQDEECISGNQQ

Parental  IGPSYEEFLKEKEKQKLKKLPPDRVGANFDHSSRTSAGWLPSFGRVWNNGRRWQSRHQFKTEAAAMKKQ
          .G.S..EF.KEKEK..LK.L.P..VGANF.HSSRTSAGWLPS..RVWNNG..WQ.R.Q..TEAAAM.KQ
Retrocopy TGSSFKEFIKEKEKEELKELSPN*VGANFNHSSRTSAGWLPSLDRVWNNGYCWQFRRQLRTEAAAMNKQ

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	7.77 RPM
SRP007412_cerebellum	0.00 RPM	15.25 RPM
SRP007412_heart	0.00 RPM	3.72 RPM
SRP007412_kidney	0.04 RPM	11.33 RPM
SRP007412_liver	0.05 RPM	12.05 RPM
SRP007412_testis	0.10 RPM	9.12 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_1527 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1527 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2451
Pan troglodytes	retro_ptro_1416
Pongo abelii	retro_pabe_1802

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000186166	1 retrocopy	retro_hsap_2451,
Gorilla gorilla	ENSGGOG00000023065	1 retrocopy	retro_ggor_1527 ,
Nomascus leucogenys	ENSNLEG00000007378	1 retrocopy	retro_nleu_205,
Pongo abelii	ENSPPYG00000003948	1 retrocopy	retro_pabe_1802,
Pan troglodytes	ENSPTRG00000004360	1 retrocopy	retro_ptro_1416,