RetrogeneDB ID: retro_ggor_1247

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 16:65023316..65024356(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMPO
• Ensembl ID: ENSGGOG00000003388
• Aliases: None
• Description: None

Sequence

>retro_ggor_1247
CCGCCGCTCGCCGCCAGCGCCAAAAGAAAGGGGCCCCCGGAATTCTCCAGCTACGTACGAGGAGCGCGAGCCCACAGCCG
TCTCGGCTCCGAGCCCGCCGCCGGCAGGAAAGCCACAAAGAAAACTGATAAACCCAGACAAGATGATAAAGACGATCTAG
ATGTAACAGAACTCACTAATGAAGATCCTTTGGATCAGCTTGTGAAATACGGAGTGAATTGTGGTCCTATTGTGGGAACA
ACCAGGAAGCGGTATGAGAAATAGCTTTTGAAACTGAGGGAACAAGGAACAGAATCAAGATCGTCTCCTTCAGCAACAAT
TTCTTCTTCAGCAGAAAATACAAGGCAGAATGGAAGTAATGATTCTGACAGATATAGTGACAATGAAGAAGACTCTAAAA
TAGAGTTCAAGTTTGAGAAGAGAGAACCGCTAAACAGCGGAGTAAAGACTCCAGTAACCCTCAAGCAAAGAAGAGTTGAG
CACAACGAGAGCTATTCTCAAGCTGGAATAACTGGGACTGAATGGACAAGTGGATCTTCAAAAGGCGGACCTCTGCAGGC
ATTATTAACTGGGGAATCTACAAGAGGGTCAAGAAGAACTCCAAGCAAAAGGGTGCACACTTCAGAATATTTTCGTATAG
ATGGAGCAGTAATTTCAGCGAGTACTCCCATAGCTGAAACTCTAATCGCTTCAAACAACGAATCCTTAATTGTCAATAGG
GTGACTGGAAATTTCAAGCATGCATTTCCTATTCTGCCAGTCACTGAATTCTCAGACATACCCAGAAGAACACCAAAGAA
ACCATTGACAAGAGCTGAAGTGGGAGAAAAAAAACACAGGAAAGAAGAGTAGAAAGGGATATTCTTAAGGAAATGTTCCC
CTATGAAGCAACTACACCAACAAGAATTAGTGCTAGTTGCCACAGAACAATCAAAGGAGCTGCAGGCCGGCCATTAGAAC
TCAGTGATTTGAGGATGGAGGAGTCGTTTTCATCTACATATGTTCCTAAGTATGTTCCCTTGGCAGATGTCAAGTGAGAA

Alignment

ORF - retro_ggor_1247 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.49 %
• Parental protein coverage: 77.35 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  PPLAAGTNSK-GPPDFSSD-EEREPTPV-LGCRAAVGRKATKKTDKPRQEDKDDLDVTELTNEDLLDQLV
          PPLAA....K.GP.......EEREPT.V.LG...A.GRKATKKTDKPRQ.DKDDLDVTELTNED.LDQLV
Retrocopy PPLAASAKRK>GPRNSPATYEEREPTAV<LGSEPAAGRKATKKTDKPRQDDKDDLDVTELTNEDPLDQLV

Parental  KYGVNPGPIVGTTRKLYEKKLLKLREQGTESRSSTPLPTISSSAENTRQNGSNDSDRYSDNEEDSKIELK
          KYGVN.GPIVGTTRK.YEK.LLKLREQGTESRSS.P..TISSSAENTRQNGSNDSDRYSDNEEDSKIE.K
Retrocopy KYGVNCGPIVGTTRKRYEK*LLKLREQGTESRSS-PSATISSSAENTRQNGSNDSDRYSDNEEDSKIEFK

Parental  LEKREPLKGRAKTPVTLKQRRVEHNQSYSQAGITETEWTSGSSKGGPLQA-LTRESTRGSRRTPRKRVET
          .EKREPL....KTPVTLKQRRVEHN.SYSQAGIT.TEWTSGSSKGGPLQA.LT.ESTRGSRRTP.KRV.T
Retrocopy FEKREPLNSGVKTPVTLKQRRVEHNESYSQAGITGTEWTSGSSKGGPLQALLTGESTRGSRRTPSKRVHT

Parental  SEHFRIDGPVISESTPIAETIMASSNESLVVNRVTGNFKHASPILPITEFSDIPRRAPKKPLTRAEVGEK
          SE.FRIDG.VIS.STPIAET..AS.NESL.VNRVTGNFKHA.PILP.TEFSDIPRR.PKKPLTRAEVG..
Retrocopy SEYFRIDGAVISASTPIAETLIASNNESLIVNRVTGNFKHAFPILPVTEFSDIPRRTPKKPLTRAEVGXX

Parental  TEERRVERDI-LKEMFP-YEASTPTGISASCRRPIKGAAGRPLELSDFRMEESFSSKYVPKYVPLADVKS
          .........I.L....P.YEA.TPT.ISASC.R.IKGAAGRPLELSD.RMEESFSS.YVPKYVPLADVK.
Retrocopy XHRKEE*KGIFLRKCSP<YEATTPTRISASCHRTIKGAAGRPLELSDLRMEESFSSTYVPKYVPLADVK*

Parental  E
          E
Retrocopy E

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	13.00 RPM
SRP007412_cerebellum	0.00 RPM	16.47 RPM
SRP007412_heart	0.03 RPM	3.41 RPM
SRP007412_kidney	0.00 RPM	15.33 RPM
SRP007412_liver	0.03 RPM	16.04 RPM
SRP007412_testis	7.15 RPM	79.36 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_1247 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1247 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1652
Pan troglodytes	retro_ptro_1123
Pongo abelii	retro_pabe_1365

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000120802	1 retrocopy	retro_hsap_1652,
Gorilla gorilla	ENSGGOG00000003388	1 retrocopy	retro_ggor_1247 ,