RetrogeneDB ID: retro_ggor_315

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:152027604..152028447(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC25A38
• Ensembl ID: ENSGGOG00000013530
• Aliases: None
• Description: None

Sequence

>retro_ggor_315
TTACATCTGGTGATCAAGGCTTTCCTGTGTGGCTCCATCAGTGGAACCTGCTCTACCCTCCTTTTCCAACCTCTGGCTCT
CCTTAAAACACGCCTGCAAACCCTCCAGCCCTCAGATCATGGGTCTAGACGTGTTGGGATGTTGGCTGTACTCTTGAAGG
TAGTTTGCACAGAGAGTCTTTTGGGCCTTTGGAAAGGGATGTCCCCTTCCATTGTGAGATGTGTCCCTGGCGTTGGAATC
TACTTTGGCACTCTCTAATCTTTGAAGCGGTATTTCTTGCAAGGCCATCCCCCAACTGCCCTGGAGTCAATCATGCTGGG
GGTGGGCTCTCTCTCTGTTGCAGGGGTCTGTATGTTACCCATCACTGTAATCAAGATGCGCTATGAGAGTGGGAAATATT
GCTATGAGAGTATCTACGCTGCCCTGAGGAGCATCTATCGCAGTGAGGGGCACCGGGGCCTCTTCAGTGGCCTGACAGCA
ACTCTCCTTCGAGATATGCCCTTTTCAGGAAACTACCTGATGTTTTACAACCAGACCAAAAGCATAGTGCCCCATGACCA
GGTGGATGCAACCTTTATTCCTATTACAAATTTCAGCTGTGGGATATTTGCTGGTATTCTCGCTTCACTGGTAACTCAAC
CTGCAGATGTTATCAAAACTCATATGCAGCTTTACCCACTGAAGTTTCAATGGATTGGCCAAGCAGTGACACTTATTTTC
AAAGACTATGGACTGCGTGGCTTCTTCCAAGGTGGCATCCCCCGAGCCCTCTGCAGAACTCTAATGGCAGCAATGGCGTA
GATGGTGTATGAAGAGATGATGGCCAAGATGGGCCTGAAGTCC

Alignment

ORF - retro_ggor_315 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.24 %
• Parental protein coverage: 92.43 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LHPVIKAFLCGSISGTCSTLLFQPLDLLKTRLQTLQPSDHGSRRVGMLAVLLKVVRTESLLGLWKGMSPS
          LH.VIKAFLCGSISGTCSTLLFQPL.LLKTRLQTLQPSDHGSRRVGMLAVLLKVV.TESLLGLWKGMSPS
Retrocopy LHLVIKAFLCGSISGTCSTLLFQPLALLKTRLQTLQPSDHGSRRVGMLAVLLKVVCTESLLGLWKGMSPS

Parental  IVRCVPGVGIYFGTLYSLKQYFLRGHPPTALESVMLGVGSRSVAGVCMSPITVIKTRYESGKYGYESIYA
          IVRCVPGVGIYFGTL.SLK.YFL.GHPPTALES.MLGVGS.SVAGVCM.PITVIK.RYESGKY.YESIYA
Retrocopy IVRCVPGVGIYFGTL*SLKRYFLQGHPPTALESIMLGVGSLSVAGVCMLPITVIKMRYESGKYCYESIYA

Parental  ALRSIYHSEGHRGLFSGLTATLLRDAPFSGIYLMFYNQTKNIVPHDQVDATLIPITNFSCGIFAGILASL
          ALRSIY.SEGHRGLFSGLTATLLRD.PFSG.YLMFYNQTK.IVPHDQVDAT.IPITNFSCGIFAGILASL
Retrocopy ALRSIYRSEGHRGLFSGLTATLLRDMPFSGNYLMFYNQTKSIVPHDQVDATFIPITNFSCGIFAGILASL

Parental  VTQPADVIKTHMQLYPLKFQWIGQAVTLIFKDYGLRGFFQGGIPRALRRTLMAAMAWTVYEEMMAKMGLK
          VTQPADVIKTHMQLYPLKFQWIGQAVTLIFKDYGLRGFFQGGIPRAL.RTLMAAMA..VYEEMMAKMGLK
Retrocopy VTQPADVIKTHMQLYPLKFQWIGQAVTLIFKDYGLRGFFQGGIPRALCRTLMAAMA*MVYEEMMAKMGLK

Parental  S
          S
Retrocopy S

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	0.05 RPM	22.78 RPM
SRP007412_cerebellum	0.00 RPM	30.61 RPM
SRP007412_heart	0.00 RPM	13.45 RPM
SRP007412_kidney	0.00 RPM	44.12 RPM
SRP007412_liver	0.03 RPM	55.29 RPM
SRP007412_testis	0.10 RPM	35.02 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_315 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_315 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_266
Pan troglodytes	retro_ptro_223

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000144659	1 retrocopy	retro_hsap_266,
Gorilla gorilla	ENSGGOG00000013530	1 retrocopy	retro_ggor_315 ,
Nomascus leucogenys	ENSNLEG00000005614	1 retrocopy	retro_nleu_868,
Pan troglodytes	ENSPTRG00000014772	1 retrocopy	retro_ptro_223,
Rattus norvegicus	ENSRNOG00000018552	1 retrocopy	retro_rnor_2942,
Tupaia belangeri	ENSTBEG00000015842	1 retrocopy	retro_tbel_1400,