RetrogeneDB ID: retro_ggor_2274

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:75759702..75760528(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCT7
• Ensembl ID: ENSGGOG00000007766
• Aliases: None
• Description: None

Sequence

>retro_ggor_2274
TTGAAGCTTCTTGAAGTTGTCCATCCTGCAGCAAAGACTTCAATGGACATTGACAAACACCAAGATGCCAAGGTGGGTGA
TAGCACCACCTCAGTGACCTTACTGGCTGCAGAGTTTCTGAAGCAGGTGAAACCTTATGTGGAGGAAGGTTTGCACCCGA
AGATCATCATTCAAGCTTTACACACAGCCATCCAATTGGCAGTTAATGATAACAAAGAGATCACTGTGACCATGAAAAAG
ACAGAAAAAGTGGAGCAGAAGAAGCTGCTTGGAGAAGTGTGCCATCCTGCTCTGAGCTCCAAGCTCATCTCCCAGCAGAA
AGCCTTCTTTGCAAAGATGGTGGTTGATGCAGTGATGATGCTTGATGGTTTGCTGCAGCTTAAAATGATTGGAATCAAGA
AGATACAGGGTGGAGCCCTAGAGGATTCCCATCTGTTACCTGGTGTCGCATTCAAGAATTTCTTTTACGCTGGTGTTGGA
AATGCAACCCCAAAAGTGCTATAATCCCAAGATTGCACTTTTAAATTTTGAGCTTGAGTTGAAAGTTAGGAAAGATAATG
CTGAGATCAGAGTCCTCACAATGGGGAATTACCAGGCAATTGTTGATGCTGAGTGGAACATTCTCTATGACAAGTTAACA
AGGATCCATCATTCTGGAGCCAAAGTTGTCTTGTCCAGACTCTCCAATGGGGATGTGGTCACTCAGTACTTTGCTGACAG
GGGCAGGTTTGGTGCTGGCTGAGTACCTGAGAAGGATCTGAATAGGACAATGATGGTCTACAGAGGGTCGATCCAGACCA
TTGTGAATGCTCTGTCAGCAGACATG

Alignment

ORF - retro_ggor_2274 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.62 %
• Parental protein coverage: 50.92 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LKLLDVVHPAAKTLVDIAKSQDAEVGDGTTSVTLLAAEFLKQVKPYVEEGLHPQIIIRAFRTATQLAVNK
          LKLL.VVHPAAKT..DI.K.QDA.VGD.TTSVTLLAAEFLKQVKPYVEEGLHP.III.A..TA.QLAVN.
Retrocopy LKLLEVVHPAAKTSMDIDKHQDAKVGDSTTSVTLLAAEFLKQVKPYVEEGLHPKIIIQALHTAIQLAVND

Parental  IKEIAVTVKKADKVEQRKLLEKCAMTALSSKLISQQKAFFAKMVVDAVMMLDDLLQLKMIGIKKVQGGAL
          .KEI.VT.KK..KVEQ.KLL......ALSSKLISQQKAFFAKMVVDAVMMLD.LLQLKMIGIKK.QGGAL
Retrocopy NKEITVTMKKTEKVEQKKLLGEVCHPALSSKLISQQKAFFAKMVVDAVMMLDGLLQLKMIGIKKIQGGAL

Parental  EDSQLVAGVAFKKTFSYAG-FEMQPKKYHNPKIALLNVELELKAEKDNAEIRVHTVEDYQAIVDAEWNIL
          EDS.L..GVAF.K.F.YAG..EMQP.K..NPKIALLN.ELELK..KDNAEIRV.T...YQAIVDAEWNIL
Retrocopy EDSHLLPGVAF-KNFFYAG>LEMQPQKCYNPKIALLNFELELKVRKDNAEIRVLTMGNYQAIVDAEWNIL

Parental  YDKLEKIHHSGAKVVLSKLPIGDVATQYFADRDMFCAGRVPEEDLKRTMMACGGSIQTSVNALSADV
          YDKL..IHHSGAKVVLS.L..GDV.TQYFADR..F.AG.VPE.DL.RTMM...GSIQT.VNALSAD.
Retrocopy YDKLTRIHHSGAKVVLSRLSNGDVVTQYFADRGRFGAG*VPEKDLNRTMMVYRGSIQTIVNALSADM

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	223.56 RPM
SRP007412_cerebellum	0.16 RPM	171.38 RPM
SRP007412_heart	0.00 RPM	80.99 RPM
SRP007412_kidney	0.00 RPM	159.26 RPM
SRP007412_liver	0.00 RPM	93.33 RPM
SRP007412_testis	0.00 RPM	240.46 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_2274 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2274 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3354
Pan troglodytes	retro_ptro_2133
Pongo abelii	retro_pabe_2760
Macaca mulatta	retro_mmul_2093

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008879	1 retrocopy	retro_cfam_151,
Choloepus hoffmanni	ENSCHOG00000007937	1 retrocopy	retro_chof_2313,
Cavia porcellus	ENSCPOG00000019869	1 retrocopy	retro_cpor_1458,
Echinops telfairi	ENSETEG00000009409	2 retrocopies	retro_etel_1478, retro_etel_607,
Homo sapiens	ENSG00000135624	1 retrocopy	retro_hsap_3354,
Gorilla gorilla	ENSGGOG00000007766	1 retrocopy	retro_ggor_2274 ,
Macropus eugenii	ENSMEUG00000000416	1 retrocopy	retro_meug_1995,
Macaca mulatta	ENSMMUG00000012448	1 retrocopy	retro_mmul_2093,
Nomascus leucogenys	ENSNLEG00000010414	1 retrocopy	retro_nleu_1175,
Otolemur garnettii	ENSOGAG00000009162	2 retrocopies	retro_ogar_2001, retro_ogar_2698,
Pongo abelii	ENSPPYG00000012297	1 retrocopy	retro_pabe_2760,
Pan troglodytes	ENSPTRG00000012060	1 retrocopy	retro_ptro_2133,
Rattus norvegicus	ENSRNOG00000015630	2 retrocopies	retro_rnor_2179, retro_rnor_535,
Sorex araneus	ENSSARG00000011475	1 retrocopy	retro_sara_539,
Tupaia belangeri	ENSTBEG00000002066	2 retrocopies	retro_tbel_3708, retro_tbel_3751,