RetrogeneDB ID: retro_ggor_2856

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:50526948..50527983(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000006730
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PRKACA
• Ensembl ID: ENSGGOG00000013294
• Aliases: None
• Description: None

Sequence

>retro_ggor_2856
AAGAAGGACACCGAGCAGGAGGAGAGCATGAACGAGTTCCTAGCCAAAGCCAGAGGAGATTTCCTCTACAGATGGGGAAA
CCCCGCTCAAAACACCGCCAGCTCGGATCAGTTCGAACGGCTCAGGACGCTGGGCATGGGCTCCTTCGGGCGGGTGATGC
TGGTGAGGCACCGGGGGACCGGCGGCCACTACGCCATGAAGATCCTCAACAAGCAGAAGGTGGTGAAGATGAAGCAGGTC
GAGCACATACTGAACGAGAAGCGCATCCTGCAGGCGATCGACTTTCCGTTCCTCGTCAAGCTCCAGTTCTCCTTTAAGGA
CAACTCCTACCTGTACCTGGTGATGGAGTACGTGCCGGGTGGGGAGATGTTCTCCCGCCTACAGCGCGTCGGAAGGTTTA
GCGAGCCCCATGCCTGTTTCTATGCCGCCCAGGTCGTCCTGGCCTTCCAGTACCTACACTCGCTCGACCTCATCCACCGC
GACCTGAAGCCCGAGAATCTCCTCATCGACCAGCAGGGCTACCTGCAGGTGACGGACTTCGGTTTCGCCAAGCGCGTGAA
GGGCCGCACTTGGACCTTGTGCGGGACCCCAGAGTACCTGGCCCCCGAGATCATCCTGAGCAAAGGCTACAACAAGGCCG
TGGACTGGTGGGCCCTAGGGGTGCTCATCTATGAGATGGCCATGGGCTTTCCACCCTTCTACGCCGACCAGCCCATCCAG
ATCTACGAGAAGATCGTCTCTGGGAGGGTGCGGTTTCCCTCCAAACTCAGCTCTGACCTCAAGGATCTGCTGCGGAGCCT
GCTGCAGGTGGACCTCACCAAGCGCTTCGGAAACCTCAGGAACGGGGTTGGCGACATCAAGAACCACAAGTGGTTCGCCA
CAACCAACTGGATCGCCATCTATGAGAAGAAGGTGGAAGCTCCCTTCATCCCGAAGTACACAGGCCCTGGGGATGCCAGT
AACTTTGACGACTACGAGGAGGAAGAGCTCCGGATCTCCATCAATGAGAAGTGTGCCAAGGAGTTTTCTGAGTTT

Alignment

ORF - retro_ggor_2856 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.77 %
• Parental protein coverage: 98.01 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KKGSEQE-SVKEFLAKAKEDFLKKWESPAQNTAHLDQFERIKTLGTGSFGRVMLVKHKETGNHYAMKILD
          KK..EQE.S..EFLAKA..DFL..W..PAQNTA..DQFER..TLG.GSFGRVMLV.H..TG.HYAMKIL.
Retrocopy KKDTEQEESMNEFLAKARGDFLYRWGNPAQNTASSDQFERLRTLGMGSFGRVMLVRHRGTGGHYAMKILN

Parental  KQKVVKLKQIEHTLNEKRILQAVNFPFLVKLEFSFKDNSNLYMVMEYVPGGEMFSHLRRIGRFSEPHARF
          KQKVVK.KQ.EH.LNEKRILQA..FPFLVKL.FSFKDNS.LY.VMEYVPGGEMFS.L.R.GRFSEPHA.F
Retrocopy KQKVVKMKQVEHILNEKRILQAIDFPFLVKLQFSFKDNSYLYLVMEYVPGGEMFSRLQRVGRFSEPHACF

Parental  YAAQIVLTFEYLHSLDLIYRDLKPENLLIDQQGYIQVTDFGFAKRVKGRTWTLCGTPEYLAPEIILSKGY
          YAAQ.VL.F.YLHSLDLI.RDLKPENLLIDQQGY.QVTDFGFAKRVKGRTWTLCGTPEYLAPEIILSKGY
Retrocopy YAAQVVLAFQYLHSLDLIHRDLKPENLLIDQQGYLQVTDFGFAKRVKGRTWTLCGTPEYLAPEIILSKGY

Parental  NKAVDWWALGVLIYEMAAGYPPFFADQPIQIYEKIVSGKVRFPSHFSSDLKDLLRNLLQVDLTKRFGNLK
          NKAVDWWALGVLIYEMA.G.PPF.ADQPIQIYEKIVSG.VRFPS..SSDLKDLLR.LLQVDLTKRFGNL.
Retrocopy NKAVDWWALGVLIYEMAMGFPPFYADQPIQIYEKIVSGRVRFPSKLSSDLKDLLRSLLQVDLTKRFGNLR

Parental  NGVNDIKNHKWFATTDWIAIYQRKVEAPFIPKFKGPGDTSNFDDYEEEEIRVSINEKCGKEFSEF
          NGV.DIKNHKWFATT.WIAIY..KVEAPFIPK..GPGD.SNFDDYEEEE.R.SINEKC.KEFSEF
Retrocopy NGVGDIKNHKWFATTNWIAIYEKKVEAPFIPKYTGPGDASNFDDYEEEELRISINEKCAKEFSEF

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	100.94 RPM
SRP007412_cerebellum	0.00 RPM	68.83 RPM
SRP007412_heart	0.03 RPM	52.85 RPM
SRP007412_kidney	0.00 RPM	30.71 RPM
SRP007412_liver	0.00 RPM	21.60 RPM
SRP007412_testis	9.01 RPM	101.74 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_2856 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2856 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_46
Pan troglodytes	retro_ptro_80
Pongo abelii	retro_pabe_61
Macaca mulatta	retro_mmul_186

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000072062	1 retrocopy	retro_hsap_46,
Gorilla gorilla	ENSGGOG00000013294	1 retrocopy	retro_ggor_2856 ,
Macropus eugenii	ENSMEUG00000002017	2 retrocopies	retro_meug_10, retro_meug_1166,
Pan troglodytes	ENSPTRG00000010585	1 retrocopy	retro_ptro_80,
Sarcophilus harrisii	ENSSHAG00000009246	2 retrocopies	retro_shar_13, retro_shar_49,