RetrogeneDB ID: retro_ggor_514

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:75550125..75550683(+)
• Located in intron of: ENSGGOG00000015694

Retrocopy information

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

Parental gene information

• Parental gene symbol: TATDN1
• Ensembl ID: ENSGGOG00000015875
• Aliases: None
• Description: None

Sequence

>retro_ggor_514
ATGAGTCATTTCAAGTTTATCGATATTGTTATCAACTTGACTGACCCCATGTTCAGAGGAATTTATAGGGGGATTCAAAA
GCATCAAGATGATTTATAGGATGTAATAGGGAGAGCTGTCGAGATTGGTGTTAAAAAGTTTATGATTACAGGTGGAAATC
TACAAGACAGTAAAGATGCACTGCATTTGGCACAAACAAATCATATGTTTTTCAGTACAGCTGGATGTCATCCTACAAGA
TGTGGTAAATTTGAAAAGAATAACCCTGATCTTTACTTAAAGGAGTTGCTAAATCTTGATGAAAACAATAAAGGGAAAGT
TGTGGCAATAGGAGAATGTGGACTTGATTTTGACCGACTGCAGTTTTGTCCCAAAGATACTCAACTCAAATACTGTGAAA
AACAGTTTGAACTGTCAGAACAAACAAAATTACCAATGTTTCTTCATTGTCGAAACTCACATGCTTAATTTTTGGACATA
ATTAAAAGAAATAGAGATCGGTGTGTAGAGGGAGTGGTGCATTCATTTGATGGTACCAAGGAAGCAGCAGCTCCTTTG

Alignment

ORF - retro_ggor_514 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.94 %
• Parental protein coverage: 62.63 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSRFKFIDIGINLTDPMFRGIYRGVQKHQDDLQDVIGRAVEIGVKKFMITGGNLQDSKDALHLAQTNDMF
          MS.FKFIDI.INLTDPMFRGIYRG.QKHQDDL.DVIGRAVEIGVKKFMITGGNLQDSKDALHLAQTN.MF
Retrocopy MSHFKFIDIVINLTDPMFRGIYRGIQKHQDDL*DVIGRAVEIGVKKFMITGGNLQDSKDALHLAQTNHMF

Parental  FSTVGCHPTRCGEFEKNDPDLYLKELLNLAENNKEKVVAIGECGLDFDRLQFCPKDTQLKYFEKQFELSE
          FST.GCHPTRCG.FEKN.PDLYLKELLNL.ENNK.KVVAIGECGLDFDRLQFCPKDTQLKY.EKQFELSE
Retrocopy FSTAGCHPTRCGKFEKNNPDLYLKELLNLDENNKGKVVAIGECGLDFDRLQFCPKDTQLKYCEKQFELSE

Parental  QTKLPMFLHCRNSHAEFLDIMKRNRDRCVGGVVHSFDGTKEAAAAL
          QTKLPMFLHCRNSHA.FLDI.KRNRDRCV.GVVHSFDGTKEAAA.L
Retrocopy QTKLPMFLHCRNSHA*FLDIIKRNRDRCVEGVVHSFDGTKEAAAPL

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	0.10 RPM	7.38 RPM
SRP007412_cerebellum	0.04 RPM	5.79 RPM
SRP007412_heart	0.03 RPM	2.31 RPM
SRP007412_kidney	0.04 RPM	9.36 RPM
SRP007412_liver	0.03 RPM	5.49 RPM
SRP007412_testis	0.10 RPM	9.01 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_514 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_514 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_578
Pongo abelii	retro_pabe_609

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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	ENSBTAG00000033446	1 retrocopy	retro_btau_463,
Homo sapiens	ENSG00000147687	1 retrocopy	retro_hsap_578,
Gorilla gorilla	ENSGGOG00000015875	1 retrocopy	retro_ggor_514 ,
Nomascus leucogenys	ENSNLEG00000005467	1 retrocopy	retro_nleu_804,
Oryctolagus cuniculus	ENSOCUG00000017403	1 retrocopy	retro_ocun_730,
Rattus norvegicus	ENSRNOG00000047198	1 retrocopy	retro_rnor_1737,
Tupaia belangeri	ENSTBEG00000006179	1 retrocopy	retro_tbel_707,