RetrogeneDB ID: retro_ggor_497

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:19413166..19414124(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AIFM1
• Ensembl ID: ENSGGOG00000007635
• Aliases: None
• Description: None

Sequence

>retro_ggor_497
GAACTGTGGTTTTCAGATGACTCAGATGTCACAAAGACAGTGTGATTCAGACAGTGGAATGGAAAAAGAGAGAAGCATGT
ATTTCCAGCCACCTCTTTCTGTGTCTCTGCCCAGGACTTGCCTCACGTTGAGAATGGTGTTGTGGCCATCCTCACGAGGT
AGAAGGTGGTATAGCTGAAAGTGAGAGGTAACACAGTGAAACTTAATGATGGCTCCCAAATAGCCTATGAAAACTGCTTG
ATTGCAACAAGAGGTCCTCCAAGAAGTCTGTCTGAAATTGATGAAGCTGGATCAGAGGTGAAGAGCAGAGCAACACTCTC
TAGAAAGATTGGAGACTCTAGGACTCTGGAGAAGATTTCATGGAAGTCAAGTCACTTATGGTTATTGGTGGGGGCTTGCT
TGGTGGTGAACTGGCCTGTGCTCTTGGCAGAAAGGGTTGGAGCCTTGGGCACAGAAGTGATTCAACTGTTTTCTGAGAAG
GGAAATATGGGAAAGGTCTTCTGCAAATCCCTCTGCAACTGAACCATGGAAAAAGTCAGACAAGAGGGGGTTAAGATAAT
ACCCATTGCTATTGTGCAACCGGTTGGAGTCAGCAGTGGCAAGTTACTCATCACGTTGAAAGATGGTGGGAAGGTAGAAA
CTGACCACATAGCAGCAGCCGTGAGCCTGAAGCCCAGTGCTGAGTTGGCCGAGAACTGGTGGGCTGGAAATAGGCCCAGA
TTTTGGTGGCTTCTGGGTAAATGTAGAGCTATACTCATGCCTAAACATCTGGGTGGCAGGAGATGCTGCATGCTTCTATG
ATATAAATCTGGGGAGGAGGCAGTTAGAGCACCGTGATCATGTTTTTGTGAGCAGAAGATTGGCTGGAGAAAATATGACT
GGAGCTTCTAAGCCGTACTGGCATAAGTCAGTGTGCTGGAATGATTTGAGCCCTGATGCTGGCTATGAAGCTATTGGC

Alignment

ORF - retro_ggor_497 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.85 %
• Parental protein coverage: 52.12 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  ELWFSDDPNVTKTLRFKQWNGK-ERSIYFQPP-SFYVSAQDLPHTENGGVAVLTGKKVVQLDVRDNMVKL
          ELWFSDD..VTKT..F.QWNGK.ERS.YFQPP.SF.VSAQDLPH.ENG.VA.LT..KVV.L.VR.N.VKL
Retrocopy ELWFSDDSDVTKTV*FRQWNGK>ERSMYFQPP<SFCVSAQDLPHVENGVVAILTR*KVV*LKVRGNTVKL

Parental  NDGSQITYEKCLIATGGTPRSLSAIDRAGAEVKSRTTLFRKIGDFRSLEKIS-REVKSITIIGGGFLGSE
          NDGSQI.YE.CLIAT.G.PRSLS.ID.AG.EVKSR.TL.RKIGD.R.LEKIS..EVKS...IGGG.LG.E
Retrocopy NDGSQIAYENCLIATRGPPRSLSEIDEAGSEVKSRATLSRKIGDSRTLEKIS<MEVKSLMVIGGGLLGGE

Parental  LACALGRKA-RALGTEVIQLFPEKGNMGKILPEYLSNWTMEKVRREGVKVMPNAIVQSVGVSSGKLLIKL
          LACALGRK...ALGTEVIQLF.EKGNMGK.....L.N.TMEKVR.EGVK..P.AIVQ.VGVSSGKLLI.L
Retrocopy LACALGRKG>GALGTEVIQLFSEKGNMGKVFCKSLCN*TMEKVRQEGVKIIPIAIVQPVGVSSGKLLITL

Parental  KDGRKVETDHIVAAVGLEPNVELA-KTGGLEIDSDFGGFRVNAELQARSNIWVVILFLAVFYNLLWSQGR
          KDG.KVETDHI.AAV.L.P..ELA..TGGLEI..DFGGF.VN.EL....NIW.V....A.FY........
Retrocopy KDGGKVETDHIAAAVSLKPSAELA>RTGGLEIGPDFGGFWVNVELYSCLNIW-VAGDAACFYDINLGRRQ

Parental  TYRRDMAAAKPAIEGQTSTGTACLWSQKSDPRSDLGPDVGYEAIG
          ...RD.........G...TG.......KS....DL.PD.GYEAIG
Retrocopy LEHRDHVFVSRRLAGENMTGASKPYWHKSVCWNDLSPDAGYEAIG

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	0.53 RPM	21.58 RPM
SRP007412_cerebellum	0.35 RPM	13.12 RPM
SRP007412_heart	1.34 RPM	48.53 RPM
SRP007412_kidney	4.58 RPM	168.99 RPM
SRP007412_liver	1.00 RPM	39.83 RPM
SRP007412_testis	1.24 RPM	39.06 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_497 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_497 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000018718	1 retrocopy	retro_dnov_767,
Homo sapiens	ENSG00000156709	1 retrocopy	retro_hsap_546,
Gorilla gorilla	ENSGGOG00000007635	1 retrocopy	retro_ggor_497 ,
Microcebus murinus	ENSMICG00000016006	1 retrocopy	retro_mmur_492,
Tarsius syrichta	ENSTSYG00000000060	1 retrocopy	retro_tsyr_615,