RetrogeneDB ID: retro_ggor_435

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:126074759..126076141(-)
• Located in intron of: ENSGGOG00000009281

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCT8
• Ensembl ID: ENSGGOG00000006344
• Aliases: None
• Description: None

Sequence

>retro_ggor_435
ACGGCTTCCTGCAGGCTGGCCATGGCGCTTCAAGTTCCCAAGACTTCGGGCTTCGCCCAGATGCTCAAGGAGGGAGCGAA
ACACTTTTCGGAATTAGAAGAGGCTGTGTATAGAAACATACAAGCTTGCAAGGAGCTTGCCCAAACCACTCGTACAGCAT
ATGGACGAAATGGAATGGAAAAAATGGTTATCAACTACTTGGAGAAGTTGTTTGTGACAAATGATGCAGCGACTATTTTA
AGAGAACTAGAAGTACAGCATCCTGCTGCAAAAATGACTGTAATGGCTTCTCATATGCAAGAGCAAGAAGTTGGAGATGG
CACAAACTTTGTTCTGGTATTTGCTGGAGCTCTCCTGGAATTAGCTGAAGAACTTCTGAGGATTGGCCTGTCAGTTTCAG
AGGTCATAGAAGGTTATGAAATAGCTTGCAGAAAAGCTCATGAGATTCTTCCTAATTTGGTGCGTTGTTCTGCAAAAAAC
CTTCGAGATGTTGATGAAGTCTCATCTCTACTTCGTACCTCTGTAATGAGTAAACAATATGGTAATGAAGTATTTCTGGC
CAAGCTTATTGTTCAGGCATGCGTATCTATTTTTCCTGATTCTGGCCATTTCAAAGTTGATAACATCAGAGTTTGTAAAA
TTCTGGGCTGTGGTATCACTTCCTCTTCAGTATTGCATGGCATGGTTTTTAAGAAGGAAACAGAAGGTGATGTACCTCTG
TCAAAGATGCAAAAATAGCAGTGTACTCTTGTCCTTTTGATGGCATGATAACAGAAACTAAGGGAACAGTGTTGATAAAG
ACTGATGAAGAATTGATGAATTTAAGTAAGGGAGAAGAAAATCTCATGGATGCATAAGTCAAAGCTATTGCTGATACTGG
TGCAAATGTTGTAGTAACAGGTGGCAAAGTGGAAGACATGGCTCTTCATTATGCAAACAAATATAATATGATGTTAGTGA
AGCTAAACTCAAAATGGGATCTCCGAAGGCTCTGTAAAACAGTTGGTGCTACAGCTCTTCCTAGATTGACACCTCCGGTC
CTTGAAGAAATGGGACACTGTGACAGTGTTTACCTCTCAGAAGTTGGAGATACTCAGGTGGTGGTTTTTTAAGCATGAAA
AGGAAGATGGCATCATTTCTACCATAGTACTTCGGGGCTCTACAGACAATCTGATGATGACATAGAAAGGGCAGTAGATG
ATGGTGTTAATACTTTCAAAGTTCTTACAAGGGATAAACGTCTTGTACCCAGAGGTGGAGCAACAGAAATTGAATTAGCC
AAACAGATCATATCATATGGAGAGACATGTCCTGGACTTGAACAGTATGCTGTTAAGAAGTTTGCTGAGGCGTTTGAAGC
TATTCCCCATGCACTGGCAGAA

Alignment

ORF - retro_ggor_435 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.32 %
• Parental protein coverage: 83.06 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TAFCRLVMALHVPKAPGFAQMLKEGAKHFSGLEEAVYRNIQACKELAQTTRTAYGPNGMNKMVINHLEKL
          TA.CRL.MAL.VPK..GFAQMLKEGAKHFS.LEEAVYRNIQACKELAQTTRTAYG.NGM.KMVIN.LEKL
Retrocopy TASCRLAMALQVPKTSGFAQMLKEGAKHFSELEEAVYRNIQACKELAQTTRTAYGRNGMEKMVINYLEKL

Parental  FVTNDAATILRELEVQHPAAKMIVMASHMQEQEVGDGTNFVLVFAGALLELAEELLRIGLSVSEVIEGYE
          FVTNDAATILRELEVQHPAAKM.VMASHMQEQEVGDGTNFVLVFAGALLELAEELLRIGLSVSEVIEGYE
Retrocopy FVTNDAATILRELEVQHPAAKMTVMASHMQEQEVGDGTNFVLVFAGALLELAEELLRIGLSVSEVIEGYE

Parental  IACRKAHEILPNLVCCSAKNLRDIDEVSSLLRTSIMSKQYGNEVFLAKLIAQACVSIFPDSGHFNVDNIR
          IACRKAHEILPNLV.CSAKNLRD.DEVSSLLRTS.MSKQYGNEVFLAKLI.QACVSIFPDSGHF.VDNIR
Retrocopy IACRKAHEILPNLVRCSAKNLRDVDEVSSLLRTSVMSKQYGNEVFLAKLIVQACVSIFPDSGHFKVDNIR

Parental  VCKILGSGISSSSVLHGMVFKKETEGDV-TSVKDAKIAVYSCPFDGMITETKGTVLIKTAEELMNFSKGE
          VCKILG.GI.SSSVLHGMVFKKETEGDV.TSVKDAKIAVYSCPFDGMITETKGTVLIKT.EELMN.SKGE
Retrocopy VCKILGCGITSSSVLHGMVFKKETEGDV<TSVKDAKIAVYSCPFDGMITETKGTVLIKTDEELMNLSKGE

Parental  ENLMDAQVKAIADTGANVVVTGGKVADMALHYANKYNIMLVRLNSKWDLRRLCKTVGATALPRLTPPVLE
          ENLMDA.VKAIADTGANVVVTGGKV.DMALHYANKYN.MLV.LNSKWDLRRLCKTVGATALPRLTPPVLE
Retrocopy ENLMDA*VKAIADTGANVVVTGGKVEDMALHYANKYNMMLVKLNSKWDLRRLCKTVGATALPRLTPPVLE

Parental  EMGHCDSVYLSEVGDTQVVV-FKHEKEDGAISTIVLRGSTDNLM-DDIERAVDDGVNTFKVLTRDKRLVP
          EMGHCDSVYLSEVGDTQVVV.FKHEKEDG.ISTIVLRGSTDNLM.DDIERAVDDGVNTFKVLTRDKRLVP
Retrocopy EMGHCDSVYLSEVGDTQVVV>FKHEKEDGIISTIVLRGSTDNLM<DDIERAVDDGVNTFKVLTRDKRLVP

Parental  GGGATEIELAKQITSYGETCPGLEQYAIKKFAEAFEAIPRALAE
          .GGATEIELAKQI.SYGETCPGLEQYA.KKFAEAFEAIP.ALAE
Retrocopy RGGATEIELAKQIISYGETCPGLEQYAVKKFAEAFEAIPHALAE

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	0.48 RPM	87.28 RPM
SRP007412_cerebellum	0.51 RPM	74.82 RPM
SRP007412_heart	0.09 RPM	18.89 RPM
SRP007412_kidney	0.57 RPM	107.37 RPM
SRP007412_liver	27.35 RPM	63.65 RPM
SRP007412_testis	0.73 RPM	178.30 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_435 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_435 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_449

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000156261	1 retrocopy	retro_hsap_449,
Gorilla gorilla	ENSGGOG00000006344	1 retrocopy	retro_ggor_435 ,
Pongo abelii	ENSPPYG00000011318	1 retrocopy	retro_pabe_1759,