RetrogeneDB ID: retro_ggor_523

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:82902340..82903264(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CEP57L1
• Ensembl ID: ENSGGOG00000014982
• Aliases: None
• Description: None

Sequence

>retro_ggor_523
ATGGATTCTGAATTAATGCATAGTATAGTAGGAAGCTATCATAAACCTCCAGAAAGAGTATTCGTTCCCTCATTCAACCA
GAATGAACCATCTCAGAATTGCCATCCTGCAAACTTAGAAGTTACCTCTCCTAAGATACTTCATAGCCAAAATAGCCAAG
CTCTTATTTTAGCCTTAAAAACTCTTCAGGAAAAAAGTCATTGTTTAGAGCTGGAGAGAACACAAGCTGAAGATAACCTG
AACATTCTTTCCAGAGAAGCAGCACAGTATAAGAAGGCCTTAGAGAATGAAACAAATGAGAGAAATCTGGCACATCAGGA
GCTGATAAAGCAGAAAAAAGATGTAAGTATACAGTTAAGCTCAGCCCAGTCTCGTTGCACTCTTCTAGAGAAGCAACTAG
AATATACAAAGAGAATGGTTCTCAATGTAGAGCGAGAAAAGAACATGATCCTAGAACAATAGGCCCAGCTTCAGAGGGAA
AAAGAACAAGATCAGATGAAGCTGTATGCAAAACTTGACAAGCTTGATGTCTTAGAAAAAGAGTGTTTTAGACTTACAAC
AACTCAGAAAACTGCTGAGGACAAGATTAAACATTTAGAAGAAAAACTTAAGGAAGAAGAACATCAACGTAAGCTATTTC
AAGACAAAGCTTCTGAGCTTCAAACTGGACTTGAAATCAGTAAAATTATGTCTTCAGTTTCAAATCTAAAGCACTTCAAG
GAAAAGAAGAAATCTTCAAAGAAAACTAAATGTATAAAGAGAGGACCACCTTGGCAAATTTGTTCAAAGTTTGGAGCACT
GCCTTTTGTGGCTGAAAAGATGAGGCAACATCGTGACCCACATATCCTTCAGAAACCTTTTAATGTGACTGAGACTAGAT
GTCTCCCCAAGCCTTCTAGAACAACTGCCTGGTGTAAAGCTATT

Alignment

ORF - retro_ggor_523 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.82 %
• Parental protein coverage: 67.32 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDSELMHSIVGSYHKPPERVFVPSFTQNEPSQNCHPANLEVTSPKILHSPNSQAALILALKTLQEKIHRL
          MDSELMHSIVGSYHKPPERVFVPSF.QNEPSQNCHPANLEVTSPKILHS.NSQA.LILALKTLQEK.H.L
Retrocopy MDSELMHSIVGSYHKPPERVFVPSFNQNEPSQNCHPANLEVTSPKILHSQNSQA-LILALKTLQEKSHCL

Parental  ELERTQAEDNLNILSREAAQYKKALENETNERNLAHQELIKQKKVDISIQLSSAQSRCTLLEKQLEYTKR
          ELERTQAEDNLNILSREAAQYKKALENETNERNLAHQELIKQKK.D.SIQLSSAQSRCTLLEKQLEYTKR
Retrocopy ELERTQAEDNLNILSREAAQYKKALENETNERNLAHQELIKQKK-DVSIQLSSAQSRCTLLEKQLEYTKR

Parental  MVLNVEREKNMILEQQAQLQREKEQDQMKLYAKLEKLDVLEKECFRLTTTQKTAEDKIKHLEEKLKEEEH
          MVLNVEREKNMILEQ.AQLQREKEQDQMKLYAKL.KLDVLEKECFRLTTTQKTAEDKIKHLEEKLKEEEH
Retrocopy MVLNVEREKNMILEQ*AQLQREKEQDQMKLYAKLDKLDVLEKECFRLTTTQKTAEDKIKHLEEKLKEEEH

Parental  QRKLFQDKASELQTGLEISKIIMSSVSNLKHSKQKKKSSKKTKCIKRGPPWQICSKFGALPFVAEKMRQH
          QRKLFQDKASELQTGLEISKI.MSSVSNLKH.K.KKKSSKKTKCIKRGPPWQICSKFGALPFVAEKMRQH
Retrocopy QRKLFQDKASELQTGLEISKI-MSSVSNLKHFKEKKKSSKKTKCIKRGPPWQICSKFGALPFVAEKMRQH

Parental  RDPHILQKPFNVTETRCLPKPSRTTSWCKAI
          RDPHILQKPFNVTETRCLPKPSRTT.WCKAI
Retrocopy RDPHILQKPFNVTETRCLPKPSRTTAWCKAI

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	0.10 RPM	2.59 RPM
SRP007412_cerebellum	0.12 RPM	2.52 RPM
SRP007412_heart	0.03 RPM	1.13 RPM
SRP007412_kidney	0.04 RPM	4.70 RPM
SRP007412_liver	0.16 RPM	7.25 RPM
SRP007412_testis	0.83 RPM	25.59 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_523 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_523 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_591
Pan troglodytes	retro_ptro_434
Pongo abelii	retro_pabe_598

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000183137	1 retrocopy	retro_hsap_591,
Gorilla gorilla	ENSGGOG00000014982	1 retrocopy	retro_ggor_523 ,
Nomascus leucogenys	ENSNLEG00000012502	1 retrocopy	retro_nleu_2216,
Otolemur garnettii	ENSOGAG00000015479	1 retrocopy	retro_ogar_902,
Pongo abelii	ENSPPYG00000016901	1 retrocopy	retro_pabe_598,
Pan troglodytes	ENSPTRG00000018480	1 retrocopy	retro_ptro_434,