RetrogeneDB ID: retro_ggor_396

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:65439513..65440622(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DNAJC7
• Ensembl ID: ENSGGOG00000010230
• Aliases: None
• Description: None

Sequence

>retro_ggor_396
AGTTTCCAGAGAGCCCTAGAACTGGATCATAAAAATGCTCAGGAATAACAGGAGTTCAAGAATGCCAATTCAATAATGGA
ATATGAGAAGCTAGCAAAAACAGATTTTGAGAAGCATGATATTAGGAAGGTTGTTCTCTGCATGGACTGTGCCCTAGCAC
TTGCCCCTGCCTGCCATTGCTTCAAAATCCTCAAAACAGAATATTTAGTAATGCTGGGTCATTATCCAGAAGCACAATCT
GTGGCCAATGACATTTTACAAATGGAGTCCACCAATGCAGATCCTCTGTATGTATAAGGTCTTTGCCTTTATTATGAAGA
TTGTATTGACAAGTCAGTTCAGTTTTTGTATAGGCTCTTAGGATGGCTCCATGAGAGGGCCTGCACTGCTTGCAGAAATC
CCGAAGCACTCAAAGCAAAGAAAGAAGACAGAAATAAAGCATTTAAGGAAGGAAATTACAAGCTAGCATACAAACTGTAC
ACATGACCCCTGGGGATAAACCCCAACAATATAAAAACTAATGCTAAACTCTACTATAATCGGGTTATGGTTAATTCTAA
GCTTAGGAAACTAGATAATGCAATACAAGACTGCACAAATACAGTGAAGCTCAATGACACCTATTTAAAAGCCTGCTTGA
GAAGAGCTCAGTGTTACATGAACACCAAACAGTATGAAGAAGCAGTGCACAATTATGAAAAAGTGTATCAGACAGAGAAA
ACAAAAGAACACAAACAGCTCCTAAAAAATGCACAGCTGAAACTGAAGAAGAGTAAGAAGAAAGATTACTACAAGATTCT
GGGAGTGGACAATAATGCCTCTGAGGACGAGACCAAGAAAGCTTATCACAAATGGGCCTTGATGCACCATCCAGATTGGC
ACAGTGGAGGCAGTGCCAAGGTTCAGAAGGAGGAGGGGAAGTTCAAGGAAATTGGAGAGGCCTTTACCATCTTCTCTGAT
CCCAAGAAAAAGACTCGCTAGGACAGTGGACAGGACCTGGACAAGGAGGGCATGAATATGGGTGATTTTGATGCAAATAG
TATCTTCAAGGCATTCTTCAGTGGTCTTGGGGTTTCAGCTTTGAAGCGTCTGGTCCAGGAAATTTTTTT

Alignment

ORF - retro_ggor_396 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.95 %
• Parental protein coverage: 82.52 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SFQRALELDHKNAQAQQEFKNANAVMEYEKIAETDFEKRDFRKVVFCMDRALEFAPACHRFKILKAECLA
          SFQRALELDHKNAQ..QEFKNAN..MEYEK.A.TDFEK.D.RKVV.CMD.AL..APACH.FKILK.E.L.
Retrocopy SFQRALELDHKNAQE*QEFKNANSIMEYEKLAKTDFEKHDIRKVVLCMDCALALAPACHCFKILKTEYLV

Parental  MLGRYPEAQSVASDILRMDSTNADALYVRGLCLYYEDCIEKAVQFFVQALRMAPDHEKACIACRNAKALK
          MLG.YPEAQSVA.DIL.M.STNAD.LYV.GLCLYYEDCI.K.VQF....L.....HE.AC.ACRN..ALK
Retrocopy MLGHYPEAQSVANDILQMESTNADPLYV*GLCLYYEDCIDKSVQFLYRLLGWL--HERACTACRNPEALK

Parental  AKKEDGNKAFKEGNYKLAYELYTEALGIDPNNIKTNAKLYCNRGTVNSKLRKLDDAIEDCTNAVKLDDTY
          AKKED.NKAFKEGNYKLAY.LYT..LGI.PNNIKTNAKLY.NR..VNSKLRKLD.AI.DCTN.VKL.DTY
Retrocopy AKKEDRNKAFKEGNYKLAYKLYT*PLGINPNNIKTNAKLYYNRVMVNSKLRKLDNAIQDCTNTVKLNDTY

Parental  IKAYLRRAQCYMDTEQYEEAVRDYEKVYQTEKTKEHKQLLKNAQLELKKSKRKDYYKILGVDKNASEDEI
          .KA.LRRAQCYM.T.QYEEAV..YEKVYQTEKTKEHKQLLKNAQL.LKKSK.KDYYKILGVD.NASEDE.
Retrocopy LKACLRRAQCYMNTKQYEEAVHNYEKVYQTEKTKEHKQLLKNAQLKLKKSKKKDYYKILGVDNNASEDET

Parental  KKAYRKRALMHHPDRHSGASAEVQKEEEKKFKEVGEAFTILSDPKKKTRYDSGQDLDEEGMNMGDFDPNN
          KKAY.K.ALMHHPD.HSG.SA.VQK.EE.KFKE.GEAFTI.SDPKKKTR.DSGQDLD.EGMNMGDFD.N.
Retrocopy KKAYHKWALMHHPDWHSGGSAKVQK-EEGKFKEIGEAFTIFSDPKKKTR*DSGQDLDKEGMNMGDFDANS

Parental  IFKAFFGGPG-GFSFEASGPGNFF
          IFKAFF.G.G.GFSFEASGPGNFF
Retrocopy IFKAFFSGLG<GFSFEASGPGNFF

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	65.70 RPM
SRP007412_cerebellum	0.00 RPM	36.36 RPM
SRP007412_heart	0.00 RPM	12.54 RPM
SRP007412_kidney	0.00 RPM	46.33 RPM
SRP007412_liver	0.00 RPM	20.44 RPM
SRP007412_testis	0.10 RPM	55.63 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_396 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_396 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000015749	1 retrocopy	retro_cfam_451,
Callithrix jacchus	ENSCJAG00000035699	2 retrocopies	retro_cjac_2381, retro_cjac_2475,
Homo sapiens	ENSG00000168259	1 retrocopy	retro_hsap_3524,
Gorilla gorilla	ENSGGOG00000010230	2 retrocopies	retro_ggor_2382, retro_ggor_396 ,
Myotis lucifugus	ENSMLUG00000011968	2 retrocopies	retro_mluc_1232, retro_mluc_1527,
Macaca mulatta	ENSMMUG00000016118	3 retrocopies	retro_mmul_1084, retro_mmul_1854, retro_mmul_501,
Nomascus leucogenys	ENSNLEG00000011230	2 retrocopies	retro_nleu_1569, retro_nleu_490,
Pongo abelii	ENSPPYG00000008402	2 retrocopies	retro_pabe_2911, retro_pabe_317,
Pan troglodytes	ENSPTRG00000009188	2 retrocopies	retro_ptro_2393, retro_ptro_304,