RetrogeneDB ID: retro_ggor_2514

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:43697555..43698826(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TCP1
• Ensembl ID: ENSGGOG00000014063
• Aliases: None
• Description: t-complex 1 [Source:HGNC Symbol;Acc:11655]

Sequence

>retro_ggor_2514
GAGAGGCCTTTGTCCGTGTTTGGGGACCGCAGCACTGGGGAGGCGATCTGCTCCCAGAACGTTATGGCTGCAGCTTTGAT
TGCCAATACTGTAAAAAGTTCTCTTGGTCCAGTTGGCTTGGTTAAAATGTTGGTGGATGATATTGGTGATGTATCCATTA
CTAACGGTGGTGCACCATCCTGAAGTTACTGGAGTTAGAACATCCTGCAGCTAAAGTTCTTTGTGAGCTGGCTGATCTGC
AAGACAAAGAAGTTGGAGATGGAACTACCTCCATGGTTATTATTGCAGCAGAACTCCTAAAAAATGAAGATGAATTAGTC
AAACAGAAAATTCATCCCACGTCAGTTATTAGTGGCTATGGACTTGCTTGCAAGGAAGCAGTGTGTTATATCAATGAAAA
CCTAATTGTTAACACAGATAGAGTGGGAAGAGATTGCCTGATTAATGCTGCCAAGACATCCACGTCTTCCAAAATCATTG
GAATAAATGGTGATTTCTTTGCTAACATGGTAGTAGATGCTGTATTTGCTATTAAATACACAGACATAAGAGGCCAGCCA
TGCTATCCAGTCAATTCTGTTCATATTTTGAAAGCCCATGGGAAAAGTCAAACAGAGAGTATGCTCATCAGTGGCTATGC
ACTCAACTGTGTGGTGGGATCCCAGGGCATACCCAAGAGAATTGTAAATGCAAAAATTGCTTGCCTTGACTTTGGCCTGC
AAAAAACAAAAATGAAGCTTGGTATACAGGTGGTCATTACAGACCCTGAAAAACTGGACCAAATTAGACAGAGAGAATCA
GATATTACCAAGGAGAGAATTCAGAAGATCCTGGTAACTGGTGCCAGTGTTATTCTAACCATTGGTGGAACTGATGATAT
GTGTCTGAAGTATTTTGTGGAGGCTGGTGCTATGGCAGTTAGAAGAGTTTTTAAAACGGACCTTAAACGCATTCCGAAAG
CTTCTGGAGCAACTATTCTGTCAACTCTGGCCAATTTGGAAGGTAAAGAAACTTTTGAAGCTGCCATGTTGGGGCAGGCA
GAAGTGGTATAGCAGAGAATTTGTGATGATGAGCTGATCTTAATCAAAAACACTAAGGCTCATACATCTGCATCGATTAT
CTTACATGGGACAAATGATTACATGTGTGATGAGATGAAGCATTCTTTACATGATGCTTTTTGTGTAGTGAAGATAGTTT
TGGTGTCAAAATGTGTGGTTCCAGGTGGGGGTGCTGTAGAAGTAGCCCTTTCTATATACCTTGAAAACTAT

Alignment

ORF - retro_ggor_2514 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.97 %
• Parental protein coverage: 76.44 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EGPLSVFGDRSTGETIRSQNVMAAASIANIVKSSLGPVGLDKMLVDDIGDVTITNDGA-TILKLLEVEHP
          E.PLSVFGDRSTGE.I.SQNVMAAA.IAN.VKSSLGPVGL.KMLVDDIGDV.ITN.GA.TILKLLE.EHP
Retrocopy ERPLSVFGDRSTGEAICSQNVMAAALIANTVKSSLGPVGLVKMLVDDIGDVSITNGGA<TILKLLELEHP

Parental  AAKVLCELADLQDKEVGDGTTSVVIIAAELLKNADELVKQKIHPTSVISGYRLACKEAVRYINENLIVNT
          AAKVLCELADLQDKEVGDGTTS.VIIAAELLKN.DELVKQKIHPTSVISGY.LACKEAV.YINENLIVNT
Retrocopy AAKVLCELADLQDKEVGDGTTSMVIIAAELLKNEDELVKQKIHPTSVISGYGLACKEAVCYINENLIVNT

Parental  DELGRDCLINAAKTSMSSKIIGINGDFFANMVVDAVLAIKYTDIRGQPRYPVNSVNILKAHGRSQMESML
          D..GRDCLINAAKTS.SSKIIGINGDFFANMVVDAV.AIKYTDIRGQP.YPVNSV.ILKAHG.SQ.ESML
Retrocopy DRVGRDCLINAAKTSTSSKIIGINGDFFANMVVDAVFAIKYTDIRGQPCYPVNSVHILKAHGKSQTESML

Parental  ISGYALNCVVGSQGMPKRIVNAKIACLDFSLQKTKMKLGVQVVITDPEKLDQIRQRESDITKERIQKILA
          ISGYALNCVVGSQG.PKRIVNAKIACLDF.LQKTKMKLG.QVVITDPEKLDQIRQRESDITKERIQKIL.
Retrocopy ISGYALNCVVGSQGIPKRIVNAKIACLDFGLQKTKMKLGIQVVITDPEKLDQIRQRESDITKERIQKILV

Parental  TGANVILTTGGIDDMCLKYFVEAGAMAVRRVLKRDLKRIAKASGATILSTLANLEGEETFEAAMLGQAEE
          TGA.VILT.GG.DDMCLKYFVEAGAMAVRRV.K.DLKRI.KASGATILSTLANLEG.ETFEAAMLGQA.E
Retrocopy TGASVILTIGGTDDMCLKYFVEAGAMAVRRVFKTDLKRIPKASGATILSTLANLEGKETFEAAMLGQA-E

Parental  VVQERICDDELILIKNTKARTSASIILRGANDFMCDEMERSLHDALCVVKRVLESKSVVPGGGAVEAALS
          VV..RICDDELILIKNTKA.TSASIIL.G.ND.MCDEM..SLHDA.CVVK.VL.SK.VVPGGGAVE.ALS
Retrocopy VV*QRICDDELILIKNTKAHTSASIILHGTNDYMCDEMKHSLHDAFCVVKIVLVSKCVVPGGGAVEVALS

Parental  IYLENY
          IYLENY
Retrocopy IYLENY

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	0.19 RPM	93.03 RPM
SRP007412_cerebellum	0.00 RPM	61.11 RPM
SRP007412_heart	0.06 RPM	21.95 RPM
SRP007412_kidney	0.08 RPM	79.12 RPM
SRP007412_liver	0.03 RPM	41.89 RPM
SRP007412_testis	0.21 RPM	276.92 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_2514 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2514 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3722
Pan troglodytes	retro_ptro_2617
Macaca mulatta	retro_mmul_1696

---

Parental genes homology:

Parental genes homology involve 14 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000015405	1 retrocopy	retro_amel_828,
Callithrix jacchus	ENSCJAG00000011792	2 retrocopies	retro_cjac_1867, retro_cjac_2193,
Equus caballus	ENSECAG00000017953	1 retrocopy	retro_ecab_798,
Homo sapiens	ENSG00000120438	1 retrocopy	retro_hsap_3722,
Gorilla gorilla	ENSGGOG00000014063	1 retrocopy	retro_ggor_2514 ,
Microcebus murinus	ENSMICG00000007998	1 retrocopy	retro_mmur_795,
Macaca mulatta	ENSMMUG00000012846	1 retrocopy	retro_mmul_1696,
Oryctolagus cuniculus	ENSOCUG00000013847	1 retrocopy	retro_ocun_1577,
Pongo abelii	ENSPPYG00000017146	1 retrocopy	retro_pabe_3135,
Pan troglodytes	ENSPTRG00000018760	1 retrocopy	retro_ptro_2617,
Pteropus vampyrus	ENSPVAG00000005316	1 retrocopy	retro_pvam_522,
Sorex araneus	ENSSARG00000002463	1 retrocopy	retro_sara_624,
Sarcophilus harrisii	ENSSHAG00000015128	1 retrocopy	retro_shar_830,
Ictidomys tridecemlineatus	ENSSTOG00000005572	1 retrocopy	retro_itri_1274,