RetrogeneDB ID: retro_ggor_1396

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 18:10014603..10015614(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025907
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RHBDD3
• Ensembl ID: ENSGGOG00000012202
• Aliases: None
• Description: None

Sequence

>retro_ggor_1396
GTGCACCGACTGCTGACCCATGCCCTGGGCCACACGGCCCTGCCGGGCCTGCTCCTGAGCCTGCTGCTCCTGCCCACTGT
GGGCTGGCAGCAGGAGTGCCACCTGGGCACGCTGAGATTCCTGCATGCCTCAGCCCTGCTCGCCCTGGCTTCTGGGCTGC
TGGCAGTGCTGCTGGCAGGCCTTGGGCTGTCCAGTGCAGCCGGCAGCTGTGGATACATGCCTGTCCACCTGGCCATGCTG
GCTGGGGAGGGACACCGCCCTAGATGGCCCCGTGGGGCACGGCCACCGTGGCTGCCGCCGTGGCTGCTGCTTGCCCTGAC
CCCACTGCTCAGCTCTGAGCCACCCTTCCTGCAGCTCCTTTGCGGCCTCCTTGCCGGCCTGGCCTATGCAGCTGGGGCCT
TCCGGTGGCTGGAACCCTCAGAGCGACGGCTGCAGGTGCTGCAGGAGGGCGTCTTGTGCAGGACCTTGGCGGGGTGCTGG
CCCCTGAGGCTCCTTGCCACCCCGGGCAGCCTGGCGGAGCTGCCTGTCACCTATCCTGCCGGAGGGAGGCCTCCCATCCC
TGGACCGCCTTATGTGGCCTCCCCTGACCTCTGGTCCCACTGGGAAGACTCAGCCCTGCCCCCACCAAGCCTGAGGCCTG
TGCAGCCCACCTGGGAGGGCTCCTCAGAGGCAGGCCTGGACTGGGCTGGGGCCAGCTTCTCCCCAGGGACTCCGATGTGG
GCGGCCTTGGATGAGCAGATGCTGCAGGAGGGCATCCAGGCCTCGCTTCTTGACGGGCCAGCCCAGGAACCCCAGAGCGC
ACCATGGCTGTCCAAGTCCTCTGTCTCCTCTCTGCGGCTGCAGCAGCTGGAGCGCATGGGCTTCCCTACGGAGCAGGCGG
TGGTGGCACTGGCAGCCACAGGCCGTGTGGAGGGTGCCGTGTCACTGTTGGTTGGAGGACAAGTGGGCACTGAGACCCTG
GTGACCCATGGAAAGGGTGGGCCTGCCCACTCCAAGGGTCCTGGGCCTCCC

Alignment

ORF - retro_ggor_1396 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.52 %
• Parental protein coverage: 87.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VHRLLTHALGHTALPGLLLSLLLLPTVGWQQECHLGTLRFLHASALLALASGLLAVLLAGLGLSSAAGSC
          VHRLLTHALGHTALPGLLLSLLLLPTVGWQQECHLGTLRFLHASALLALASGLLAVLLAGLGLSSAAGSC
Retrocopy VHRLLTHALGHTALPGLLLSLLLLPTVGWQQECHLGTLRFLHASALLALASGLLAVLLAGLGLSSAAGSC

Parental  GYMPVHLAMLAGEGHRPRRPRGALPPWLPPWLLLALTPLLSSEPPFLQLLCGLLAGLAYAAGAFRWLEPS
          GYMPVHLAMLAGEGHRPR.PRGA.PPWLPPWLLLALTPLLSSEPPFLQLLCGLLAGLAYAAGAFRWLEPS
Retrocopy GYMPVHLAMLAGEGHRPRWPRGARPPWLPPWLLLALTPLLSSEPPFLQLLCGLLAGLAYAAGAFRWLEPS

Parental  ERRLQVLQEGVLCRTLAGCWPLRLLAIPGSLAELPVTHPAGVRPPIPGPPYVASPDLWSHWEDSALPPPS
          ERRLQVLQEGVLCRTLAGCWPLRLLA.PGSLAELPVT.PAG.RPPIPGPPYVASPDLWSHWEDSALPPPS
Retrocopy ERRLQVLQEGVLCRTLAGCWPLRLLATPGSLAELPVTYPAGGRPPIPGPPYVASPDLWSHWEDSALPPPS

Parental  LRPVQPTWEGSSEAGLDWAGASFSPGTPMWAALDEQMLQEGIQASLLDGPAQEPQSAPWLSKSSVSSLRL
          LRPVQPTWEGSSEAGLDWAGASFSPGTPMWAALDEQMLQEGIQASLLDGPAQEPQSAPWLSKSSVSSLRL
Retrocopy LRPVQPTWEGSSEAGLDWAGASFSPGTPMWAALDEQMLQEGIQASLLDGPAQEPQSAPWLSKSSVSSLRL

Parental  QQLERMGFPTEQAVVALAATGRVEGAVSLLVGGQVGTETLVTHGKGGPAHSKGPGPP
          QQLERMGFPTEQAVVALAATGRVEGAVSLLVGGQVGTETLVTHGKGGPAHSKGPGPP
Retrocopy QQLERMGFPTEQAVVALAATGRVEGAVSLLVGGQVGTETLVTHGKGGPAHSKGPGPP

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	6.19 RPM
SRP007412_cerebellum	0.00 RPM	6.58 RPM
SRP007412_heart	0.00 RPM	2.47 RPM
SRP007412_kidney	0.00 RPM	2.25 RPM
SRP007412_liver	0.00 RPM	3.01 RPM
SRP007412_testis	0.10 RPM	8.81 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_1396 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1396 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012114	1 retrocopy	retro_cfam_1709,
Gorilla gorilla	ENSGGOG00000012202	1 retrocopy	retro_ggor_1396 ,