RetrogeneDB ID: retro_ggor_323

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:177007901..177008533(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP6AP2
• Ensembl ID: ENSGGOG00000000532
• Aliases: None
• Description: None

Sequence

>retro_ggor_323
GGTAGGGAAGGCAAACTCAGTGAAGACCTTTCAGTCACCTTAGGACAGCTCCATAATTACTTGTTTCAGGAAAACTCCAT
TCTCAGTTCACTTCCCCTGAATTCTCTGAGTAGGAACAATGGAGTTGACTTGCTCTTTCTTTCTGAACTCCAAGTGCTAC
ATGATATTTCAAGCTTGGTGTCTTGTCATAAGCATCTAGCCAAGGATCATTCTCCTGATTTATATTCACTGGAGCTGGCA
GGTTTGGATGAAATTGGGAAGCATTACAGGGAAGACTCTGAACAATTCAGAGTTGCTTCTAAAATCCTGTTGACGCTCTG
CAAGAGTTTGCAGATAACATGTACAATCTTTACAGTGGGAATGCAGTGGTAGAGTTAGTCACTATTAAGTCATTTGACAC
CTCCCTTATGAGGAAGACAAGGACTATCTTTGAGGCAAAATAAGTGAAGAAACCAGCAAGTCCCTATAACCTTGCGTATA
ATTTTGAATATTCAGTGATTTTCAACATGATACTTTGGATAATGATTGCCTTGGCCCTGGCTGTGATTATCACTTCTTAC
AATATTTGGAACATGGATCCTGGATATGATAGCATCATTTATAGGATTACAAACCAGAAGATTCGAATAGAT

Alignment

ORF - retro_ggor_323 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.58 %
• Parental protein coverage: 61.56 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GKANSVFEDLSVTLRQLRNRLFQENSVLSSLPLNSLSRNNEVDLLFLSELQVLHDISSLLSRHKHLAKDH
          G......EDLSVTL.QL.N.LFQENS.LSSLPLNSLSRNN.VDLLFLSELQVLHDISSL.S.HKHLAKDH
Retrocopy GREGKLSEDLSVTLGQLHNYLFQENSILSSLPLNSLSRNNGVDLLFLSELQVLHDISSLVSCHKHLAKDH

Parental  SPDLYSLELAGLDEIGKRYGEDSEQFRDASKIL-VDALQKFADDMYSLYGGNAVVELVTVKSFDTSLIRK
          SPDLYSLELAGLDEIGK.Y.EDSEQFR.ASKIL.VDALQ.FAD.MY.LY.GNAVVELVT.KSFDTSL.RK
Retrocopy SPDLYSLELAGLDEIGKHYREDSEQFRVASKIL<VDALQEFADNMYNLYSGNAVVELVTIKSFDTSLMRK

Parental  TRTILEAKQAKNPASPYNLAYKYNFEYSVVFNMVLWIMIALALAVIITSYNIWNMDPGYDSIIYRMTNQK
          TRTI.EAK..K.PASPYNLA..YNFEYSV.FNM.LWIMIALALAVIITSYNIWNMDPGYDSIIYR.TNQK
Retrocopy TRTIFEAK*VKKPASPYNLA--YNFEYSVIFNMILWIMIALALAVIITSYNIWNMDPGYDSIIYRITNQK

Parental  IRMD
          IR.D
Retrocopy IRID

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	101.61 RPM
SRP007412_cerebellum	0.00 RPM	46.65 RPM
SRP007412_heart	0.00 RPM	9.57 RPM
SRP007412_kidney	0.16 RPM	131.78 RPM
SRP007412_liver	0.13 RPM	43.76 RPM
SRP007412_testis	0.41 RPM	52.94 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_323 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_323 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_280
Pan troglodytes	retro_ptro_233
Pongo abelii	retro_pabe_389
Macaca mulatta	retro_mmul_561

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006109	1 retrocopy	retro_dnov_2102,
Homo sapiens	ENSG00000182220	1 retrocopy	retro_hsap_280,
Gorilla gorilla	ENSGGOG00000000532	1 retrocopy	retro_ggor_323 ,
Myotis lucifugus	ENSMLUG00000001159	1 retrocopy	retro_mluc_1613,
Macaca mulatta	ENSMMUG00000012762	1 retrocopy	retro_mmul_561,
Nomascus leucogenys	ENSNLEG00000001441	1 retrocopy	retro_nleu_1491,
Pongo abelii	ENSPPYG00000020251	1 retrocopy	retro_pabe_389,
Pan troglodytes	ENSPTRG00000021803	1 retrocopy	retro_ptro_233,