RetrogeneDB ID: retro_ggor_2306

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:164652995..164653520(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000028113
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: C4ORF27
• Ensembl ID: ENSGGOG00000003090
• Aliases: None
• Description: None

Sequence

>retro_ggor_2306
GGCGGTGGGAGGAAGCGCAAGCCCAGCGGGGAGGGGCCTGTGAAAAAATGGTTAATGTGAAGAAAAGTAAATTCTGTGAC
GCTGATGTGGACTTCGACAAGAAGCAGAAAATCATTGTAAGCTCTCTTCACCTGAAGATTCCGATCGTTTCTGGAAGTTC
TTTGAAGAACTTGATCCTGAAAAGCCAGCTGATCACTTTCTGCAAGCCTCGGACTTCAGTTAGTTGGTCCTTATGATATC
CTCGCTGGAAAACATAAAATGAAGAAAAATTCAACAGGCCTGAATGTTAGCCTTCATTGGAGGTTTTACCGTGATCCTCC
TGAGTTCCAGACCGTCATTATTGGAGATAATAAAACTCAGTACCACATGGGGTATTTCAGGGATTCTTCTGATGAACTTC
CTGCATATGTTGGCATAAATGAAGCAAAGAAAAAGTGTACAATTGTTCCAAATGGAGATAATGTATTTGTGGCAGTCAAA
TTATTTTTGATGAAAAAACTTAAAGAAGTAACGCATAAAAAGAAA

Alignment

ORF - retro_ggor_2306 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.24 %
• Parental protein coverage: 56.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GGGKRRPGG-EGLQCEKTTDVKKSKFCEADVSSD-LRKEVENHYKLSLPEDFYHFWKFCEELDPEKPSD-
          GGG..R.....G..CEK...VKKSKFC..D...D.LR.E.ENH.KLS.PED...FWKF.EELDPEKP.D.
Retrocopy GGGRKRKPS<RGGACEKMVNVKKSKFC--DADVD<LRQEAENHCKLSSPEDSDRFWKFFEELDPEKPAD<

Parental  SLSASLGLQLVGPYDILAGKHKTKKKSTGLNFNLHWRFYYDPPEFQTIIIGDNKTQYHMGYFRDSPDEFP
          SLSASLGLQLVGPYDILAGKHK.KK.STGLN..LHWRFY.DPPEFQT.IIGDNKTQYHMGYFRDS.DE.P
Retrocopy SLSASLGLQLVGPYDILAGKHKMKKNSTGLNVSLHWRFYRDPPEFQTVIIGDNKTQYHMGYFRDSSDELP

Parental  VYVGINEAKKNCIIVPNGDNVFAAVKLFLTKKLKEITDKKK
          .YVGINEAKK.C.IVPNGDNVF.AVKLFL.KKLKE.T.KKK
Retrocopy AYVGINEAKKKCTIVPNGDNVFVAVKLFLMKKLKEVTHKKK

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	10.02 RPM
SRP007412_cerebellum	0.00 RPM	10.68 RPM
SRP007412_heart	0.00 RPM	2.72 RPM
SRP007412_kidney	0.12 RPM	8.50 RPM
SRP007412_liver	0.03 RPM	5.57 RPM
SRP007412_testis	0.21 RPM	10.26 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_2306 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2306 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000020132	1 retrocopy	retro_btau_611,
Equus caballus	ENSECAG00000013735	1 retrocopy	retro_ecab_551,
Gorilla gorilla	ENSGGOG00000003090	1 retrocopy	retro_ggor_2306 ,
Myotis lucifugus	ENSMLUG00000017052	1 retrocopy	retro_mluc_395,
Otolemur garnettii	ENSOGAG00000008007	1 retrocopy	retro_ogar_807,
Ictidomys tridecemlineatus	ENSSTOG00000001481	1 retrocopy	retro_itri_101,
Tursiops truncatus	ENSTTRG00000009751	1 retrocopy	retro_ttru_862,