RetrogeneDB ID: retro_ggor_2741

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:85290779..85291616(-)
• Located in intron of: ENSGGOG00000010075

Retrocopy information

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

Parental gene information

• Parental gene symbol: MIOX
• Ensembl ID: ENSGGOG00000013037
• Aliases: None
• Description: None

Sequence

>retro_ggor_2741
GTGAAGGTGACAGTGGACCCCGACCCTTCCCTGGTCTACCGACCTGAAGTGGACCCAGAGGCTGCCAAAGACAAGGCTGG
CTTCCAGAACTACGTGTCGGGTCCCCTCCTGGACCACGTCTTTACCACCTACAAGCTCATGCACATGCACCACACAGTGG
ATTTCGTCAGGAGCAAGCACGCCTGGTTTGGGGACTTTTCCTACAAGAAAATGAAGGTCATAGAGGCCATGGACCTGCTG
CATGGGCTGGTGGACGAATCAGACTCAGGTGTAGACTTCTCCCACTCCTTCCAAGCCTTCCAGATGGCGGAGGGCATCCG
AAAGCTCACCCAGGCAAGGACTGTTTCCAGCTTGTTGGGCTTCTATGACCTAGGGAAGGTCTTGGCCCTGTTGGGGGAGC
CCCAGTGGGTGATCACTGGAGACACATTCCCCGTTGGATGCTGTCCCCAGACTTCCGTGGTTTTGTAACTCCACTTTTCC
GGACAATCCCGACCTCCAGGATCCTGGATACAGCACAAAACTGGGCATGTATTAGCTTACTGTGGGCTCGGCAGGGTCCT
CATTTCCTAGGGCTATAATGAGTACTTGTACCAGGTGATGATGTTCAACAAGTTCTCGCTCCCACTGGAGGCTTCCTACA
GGATCCGATTCCACTCCTTCTGCCCCTGGCACACAGGCGGTGACTACCAGCAGTGGTGCAGCAAGCAGGACCTGGCCATG
CTGCCCGGGGTCCAGGAGTTCAATTTGACCAACTTCCCTGACCTGCCAGATGTGGACAAGCTGCGGCCCTACTACCAGGG
GCTCATTGATAAGTACTGCCCTGGCATCCTGAGCTGG

Alignment

ORF - retro_ggor_2741 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.6 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MKVMVGPDPSLVYRPDVDPEVAKDKASFRNYTSGPLLDRVFTTYKLMHTHQTVDFVRSKHAQFGGFSYKK
          .KV.V.PDPSLVYRP.VDPE.AKDKA.F.NY.SGPLLD.VFTTYKLMH.H.TVDFVRSKHA.FG.FSYKK
Retrocopy VKVTVDPDPSLVYRPEVDPEAAKDKAGFQNYVSGPLLDHVFTTYKLMHMHHTVDFVRSKHAWFGDFSYKK

Parental  MTVMEAVDLLDGLVDDSDPDVDFPNSFHAFQTAEGIRKAHPDKDWFHLVGLLHDL-GKVLALFGEPQWAV
          M.V.EA.DLL.GLVD.SD..VDF..SF.AFQ.AEGIRK.........L.G...DL.G......G.P....
Retrocopy MKVIEAMDLLHGLVDESDSGVDFSHSFQAFQMAEGIRKLTQARTVSSLLGF-YDL>GRSWPCWGSPSG*S

Parental  VGDTFPVGCRPQASVVFCDSTFQDNPDLQDPRYSTELGMY-QPHCGLDRVLMSWGHDEYMYQVMKFNKFS
          .....P....P.....FC.STF.DNPDLQDP.YST.LGMY....CGL.RVL.S.G..EY.YQVM.FNKFS
Retrocopy LETHSPLDAVPRLPW-FCNSTFPDNPDLQDPGYSTKLGMY<LAYCGLGRVLIS*GYNEYLYQVMMFNKFS

Parental  LPPEAFYMIRFHSFYPWHTGSDYQQLCSQQDLAMLPWVQEFNKFDLYTKCPDLPDVDKLRPYYQGLIDKY
          LP.EA.Y.IRFHSF.PWHTG.DYQQ.CS.QDLAMLP.VQEFN.....T..PDLPDVDKLRPYYQGLIDKY
Retrocopy LPLEASYRIRFHSFCPWHTGGDYQQWCSKQDLAMLPGVQEFN----LTNFPDLPDVDKLRPYYQGLIDKY

Parental  CPGILSW
          CPGILSW
Retrocopy CPGILSW

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	0.05 RPM
SRP007412_cerebellum	0.00 RPM	0.08 RPM
SRP007412_heart	0.00 RPM	0.03 RPM
SRP007412_kidney	0.00 RPM	311.86 RPM
SRP007412_liver	0.03 RPM	0.92 RPM
SRP007412_testis	0.00 RPM	0.10 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_2741 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2741 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4087

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000100253	1 retrocopy	retro_hsap_4087,
Gorilla gorilla	ENSGGOG00000013037	1 retrocopy	retro_ggor_2741 ,
Nomascus leucogenys	ENSNLEG00000000729	1 retrocopy	retro_nleu_1910,
Pan troglodytes	ENSPTRG00000014543	1 retrocopy	retro_ptro_2772,