RetrogeneDB ID: retro_ggor_2382

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:140157575..140158781(+)
• 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_2382
GATGATGGTTGCTTCTGGGGACATCTACGAGAGGACAAGTGCCACCTCTCTCTAGGGAATGCCATGGCAGCACATTGCGG
TTTTCAGAGAGCCCTAGAACCGGATCATAACAATGCTCACTCACAACAGGAGTTCACAAATGCTAATGCAGTCGAGGAAT
AGGAGAAAGTCATAGAAACAAGTTTTGAGAAGTGGGCTTTTCAGAAGGTTGTTTTCTGCATGGACTATGCCCTAGAATTT
GCCCCTGTCTGCCATCACTTCAATATCCCTCAAAGCAGAATGTTTAGCAATGCTGGGTCGTTATCCAGAAGCACAGTCTG
TGGCCAGTGACATTTTATGAACGGATTCCACCAATGTGGATGCTCTGTATGTACGCGGACTTTGCCTTTATTATGAAGAT
TGTATTGAGTAGGCAGTTGTTCAGTTTTTTGTGCAGGCTCTCAGAATGGTTCCTGACCATGAGAAGGCCTGCCTTGCGTG
CAGAAATGCCAGAGCACTTCACGCAAAGAAAGAAGACTGGAATAAAGCGTTTAGGGGAGGAAATTACAAACTAGCTGATG
AACTGTACGCAGAATCCCCGGGGTAGACCCCGACAACATAAAAGCAATTGCTAAACTCTACTGTAACCGGGATATGGTTA
ATTCCGAGCTTGGGAAACTAGATGATGCAATAGACAGCTGCACAAGTGAAGTGAAGCTCATGACACTTACATAAAAGCCT
ACTTGAGAAGAGCTCAGTGTTTCTTGGACACAACAGTATGAAGAAACAGTGCGAGGCTATGAAAAACGTATATCAGATGG
AGAAAACAAAAGAATACAAACAGCTCCTAAAAAATGCACAGCTGGAACTGAAGAAGAGTAAGAGGGATAATTATTACAAG
GTTCTGGAAGTGGACAAGAATGCCTCTGACGACAAGATCAAGAAAGCTTATTGGAAACAGGCCTTGAAGTACCATCCACA
TCGGCATGATGGAGCCAGCGCTGGGGTTCAAAAGGAGGAGGAGAAGATCAAGGAAGTGGCGAGGTCTTTATCATCCTCTT
TGATTCCAAGAAAACGATTCATTATCACAGTGGACAGGACCTGGATAAGGAAGACATAAATTTGGGTGATTTTGATGTAA
ACAATATCTTCAAGGTATTCTTCCGCGGTCCTATGGGCTTCAGCTGTGAAGCATCTGGTCCAAGGATTTTCTTTCTTCAA
TTGGGC

Alignment

ORF - retro_ggor_2382 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.62 %
• Parental protein coverage: 83.09 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  DNSFLFGHLREGKCHLSLGNAMAACRSFQRALELDHKNAQAQQEFKNANAVMEYEKIAETDFEKRDFRKV
          D.....GHLRE.KCHLSLGNAMAA...FQRALE.DH.NA..QQEF.NANAV.E.EK..ET.FEK..F.KV
Retrocopy DDGCFWGHLREDKCHLSLGNAMAAHCGFQRALEPDHNNAHSQQEFTNANAVEE*EKVIETSFEKWAFQKV

Parental  VFCMDRALEFAPACHRFKI-LKAECLAMLGRYPEAQSVASDILRMDSTNADALYVRGLCLYYEDCIEKA-
          VFCMD.ALEFAP.CH.F.I.LKAECLAMLGRYPEAQSVASDIL..DSTN.DALYVRGLCLYYEDCIE.A.
Retrocopy VFCMDYALEFAPVCHHFNI>LKAECLAMLGRYPEAQSVASDIL*TDSTNVDALYVRGLCLYYEDCIE*AV

Parental  VQFFVQALRMAPDHEKACIACRNAKALKAKKEDGNKAFKEGNYKLAYELYTEA-LGIDPNNIKTNAKLYC
          VQFFVQALRM.PDHEKAC.ACRNA.AL.AKKED.NKAF..GNYKLA.ELY.E...G.DP.NIK..AKLYC
Retrocopy VQFFVQALRMVPDHEKACLACRNARALHAKKEDWNKAFRGGNYKLADELYAES<PGVDPDNIKAIAKLYC

Parental  NRGTVNSKLRKLDDAIEDCTNAVKL-DDTYIKAYLRRAQCYMDT-EQYEEAVRDYEKVYQTEKTKEHKQL
          NR..VNS.L.KLDDAI..CT..VKL..DTYIKAYLRRAQC..DT.............VYQ.EKTKE.KQL
Retrocopy NRDMVNSELGKLDDAIDSCTSEVKL<HDTYIKAYLRRAQCFLDT<NSMKKQCEAMKNVYQMEKTKEYKQL

Parental  LKNAQLELKKSKRKDYYKILGVDKNASEDEIKKAYRKRALMHHPDRHSGASAEVQKEEEKKFKEV-GEAF
          LKNAQLELKKSKR..YYK.L.VDKNAS.D.IKKAY.K.AL..HP.RH.GASA.VQKEEE.K.KEV.GE.F
Retrocopy LKNAQLELKKSKRDNYYKVLEVDKNASDDKIKKAYWKQALKYHPHRHDGASAGVQKEEE-KIKEV<GEVF

Parental  TILSDPKKKTRYDSGQDLDEEGMNMGDFDPNNIFKAFFGGPGGFSFEASGPGNFFFQFG
          .IL.D.KK...Y.SGQDLD.E..N.GDFD.NNIFK.FF.GP.GFS.EASGP..FF.Q.G
Retrocopy IILFDSKKTIHYHSGQDLDKEDINLGDFDVNNIFKVFFRGPMGFSCEASGPRIFFLQLG

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	65.70 RPM
SRP007412_cerebellum	0.00 RPM	36.36 RPM
SRP007412_heart	0.00 RPM	12.54 RPM
SRP007412_kidney	0.04 RPM	46.33 RPM
SRP007412_liver	0.03 RPM	20.44 RPM
SRP007412_testis	0.00 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_2382 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2382 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3524
Pan troglodytes	retro_ptro_2393
Pongo abelii	retro_pabe_2911
Macaca mulatta	retro_mmul_1854

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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,