RetrogeneDB ID: retro_ggor_348

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:215887909..215888914(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC39A14
• Ensembl ID: ENSGGOG00000003765
• Aliases: None
• Description: None

Sequence

>retro_ggor_348
AGTGCAACTGAAGTGTGGGGATACGATCTCCTCTATGTGACTGTCATCTCCCTCTGCTCCCTCATGGGCACCATCGTGGT
GCCTTCAAGAAGGCCTTTTACAGAAGGAGGCTGCTGCTCCACGTCATAGCTCTGGCGATTGGAATCCTCTAGTCCAATGT
GCTCTCCTGGCTCATTCCTGGGGCTTTTAATTTCAATCCTCTGGAAGATGATTATGTGTCCAAGTCTGCAGTGGTGTCTG
GGGGCTTTTATTTTTATTTTTCAGAGATCTTGAAGATGTTTCTCAAACAGGAAAATGAACATCACATAGACATAGCCATT
ATGCCTCTGAGAGGCTTCCTTCCAAGAAGCACCAGGAGGAGGGGGTTGATCGAGAAGCTGCAGAATGGGGACCTGGACCA
CATGAGCCCTCAGCACTGCCACAGTGAACTGGATGGCAAGCGGTCCATGATGGATGGGAAGGTCGTGGTGGGCTCACTCT
CTGTGCTGGTTCTGCAGGCTCCCCAGAGTGCCTGCTGGAGCTGAAAGGTGTCCACTACTTTATCAGCACTCTGGCCTGGG
TGATCACCCTAAGCAACAGCCTCCACAATGTCCTCAGCAGCCTGGCCATTGGCGCCTCTTTCACCGTGTGTGTGGTCCAA
GGCCTCGGCACCTGGTGGCCGTCTTCCATGAGGAGTTCCCACATGACTTTGTCATCCTGCTTAGCACTAGGAGGACCATT
CAGCACTGTCTTCTTCAACCCCCTTCCGCCTGCTGCTATGTGGGTCTGGCCTTTGGCATCCTGGCCAGCAGCCACTTCTC
TGCCAACTGGATTTTTGTGCTGGTTGGAGGAATGTTCTTGAATATTGCTGTGGTTGATATGTTCCCTGAGACGAATGAGG
TCTGCCAAGAGGATGGGAGGAAGGGCAGCATCTCCATCCCCTTTGTCATTCAGAACCTGGGTCTGTTGGCCAGATTCACC
GTCATGCTGGTCCTCATGATATATTCAGGACAGATCCAGATTGGG

Alignment

ORF - retro_ggor_348 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.91 %
• Parental protein coverage: 69.92 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  SAVEVWGYGLLCVTVISLCSLLGASVVP-FMKKTFYKRLLLYFIALAIGTLYSNALFQLIPEAFGFNPLE
          SA.EVWGY.LL.VTVISLCSL.G..VVP.F.K.....RLLL..IALAIG.L.SN.L..LIP.AF.FNPLE
Retrocopy SATEVWGYDLLYVTVISLCSLMGTIVVP<FKKAFYRRRLLLHVIALAIGIL*SNVLSWLIPGAFNFNPLE

Parental  DYYVSKSAVVFGGFYLFFFTEKILKILLKQKNEHH-HGHSHYASESLPSKKDQEEGV-MEKLQNGDLDHM
          D.YVSKSAVV.GGFY..F....ILK..LKQ.NEHH.H.HSHYASE.LPSKK.QEEGV..EKLQNGDLDHM
Retrocopy DDYVSKSAVVSGGFYFYF--SEILKMFLKQENEHH<HRHSHYASERLPSKKHQEEGV>IEKLQNGDLDHM

Parental  IPQHCSSELDGKAPMVDEKVIVGSLSVQDLQASQSACY-WLKGVRYSDIGTLAWMITLSDGLHNFIDGLA
          .PQHC.SELDGK..M.D.KV.VGSLSV..LQA.QSAC...LKGV.Y..I.TLAW.ITLS..LHN....LA
Retrocopy SPQHCHSELDGKRSMMDGKVVVGSLSVLVLQAPQSACW<ELKGVHYF-ISTLAWVITLSNSLHNVLSSLA

Parental  IGASFTVSVFQGIST-SVAILCEEFPHELGDFVILLNAGMSIQQALFFNFLSACCCYLGLAFGILAGSHF
          IGASFTV.V.QG..T..VA...EEFPH...DFVILL.....IQ..L.....SAC.CY.GLAFGILA.SHF
Retrocopy IGASFTVCVVQGLGT<LVAVFHEEFPH---DFVILLSTRRTIQHCL-LQPPSAC-CYVGLAFGILASSHF

Parental  SANWIFALAGGMFLYISLADMFPEMNEVCQEDERKGSILIPFVIQNLGLLTGFTIMVVLTMYSGQIQIG
          SANWIF.L.GGMFL.I...DMFPE.NEVCQED.RKGSI.IPFVIQNLGLL..FT.M.VL..YSGQIQIG
Retrocopy SANWIFVLVGGMFLNIAVVDMFPETNEVCQEDGRKGSISIPFVIQNLGLLARFTVMLVLMIYSGQIQIG

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	0.05 RPM	29.83 RPM
SRP007412_cerebellum	0.04 RPM	16.51 RPM
SRP007412_heart	0.00 RPM	34.83 RPM
SRP007412_kidney	0.00 RPM	56.55 RPM
SRP007412_liver	0.00 RPM	591.84 RPM
SRP007412_testis	0.00 RPM	64.96 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_348 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_348 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_322

---

Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000018834	1 retrocopy	retro_dnov_1567,
Homo sapiens	ENSG00000104635	1 retrocopy	retro_hsap_322,
Gorilla gorilla	ENSGGOG00000003765	1 retrocopy	retro_ggor_348 ,
Nomascus leucogenys	ENSNLEG00000015557	1 retrocopy	retro_nleu_1765,