RetrogeneDB ID: retro_ggor_538

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:107105744..107106255(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB11A
• Ensembl ID: ENSGGOG00000014252
• Aliases: None
• Description: None

Sequence

>retro_ggor_538
TTTGCAACAAGAAGCATCCAGATTGATAGGAAAACAATAAAGGCACAGATGTGGGACAGAGCAGGGCAAGAGTAATAGGA
AGCTATAACATAAGCTTATTATCCTGAAGATGTAGGTGCCTTATTGGTTTAAGACATTGCTAAACATCTCACATATGAAA
ATACAGAATGATTGCTGAAAGAACTGAGCGATCAAACTGATAGTAACATTGTTGTCATATTATCATGGACAAATAAGAGT
GATTTACATCATCTCAGGGAAGTTCCTAGAGTTGAAGGCAAGAGCTTTGGCAGAAAAAAATGATTTGTCATTCATTGAGA
CATCTGCTCTAGACCCTACAAATGTAGAAGCTACTTTTCAAACAATTCTAACAGAGATACCTCACATTGTTTCTCAGAAG
CAAATGTCAGACAGAGCCGAAAAAGACATGTCCCCAAGCAATAATGTGGTTCCTGTTCATGTTCCACCAATCACTGAAAA
CAAACCAAAGGTGCAGTGCTGTCAGAACGTC

Alignment

ORF - retro_ggor_538 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.19 %
• Parental protein coverage: 64.75 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FATRSIQVDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNI
          FATRSIQ.D.KTIKAQ.WD.AGQE...AIT.AYY...VGALLV.DIAKHLTYEN.E..LKEL.D..DSNI
Retrocopy FATRSIQIDRKTIKAQMWDRAGQE**EAIT*AYYPEDVGALLV*DIAKHLTYENTE*LLKELSDQTDSNI

Parental  VIMLVG-NKSDLRHLRAVPTDE-ARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRIVSQKQMSDRR
          V..L...NKSDL.HLR.VP..E.ARA.AEKN.LSFIETSALD.TNVEA.FQTILTEI..IVSQKQMSDR.
Retrocopy VVILSWTNKSDLHHLREVPRVE>ARALAEKNDLSFIETSALDPTNVEATFQTILTEIPHIVSQKQMSDRA

Parental  ENDMSPSNNVVPIHVPPTTENKPKVQCCQNI
          E.DMSPSNNVVP.HVPP.TENKPKVQCCQN.
Retrocopy EKDMSPSNNVVPVHVPPITENKPKVQCCQNV

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	61.14 RPM
SRP007412_cerebellum	0.00 RPM	40.66 RPM
SRP007412_heart	0.00 RPM	14.26 RPM
SRP007412_kidney	0.00 RPM	79.20 RPM
SRP007412_liver	0.00 RPM	43.52 RPM
SRP007412_testis	0.00 RPM	159.65 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_538 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_538 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018959	1 retrocopy	retro_btau_1850,
Callithrix jacchus	ENSCJAG00000007333	1 retrocopy	retro_cjac_1050,
Echinops telfairi	ENSETEG00000004920	5 retrocopies	retro_etel_1150, retro_etel_2132, retro_etel_2214, retro_etel_694, retro_etel_837,
Homo sapiens	ENSG00000103769	1 retrocopy	retro_hsap_715,
Gorilla gorilla	ENSGGOG00000014252	2 retrocopies	retro_ggor_538 , retro_ggor_605,
Myotis lucifugus	ENSMLUG00000008820	2 retrocopies	retro_mluc_1606, retro_mluc_2435,
Macaca mulatta	ENSMMUG00000008006	1 retrocopy	retro_mmul_2463,
Nomascus leucogenys	ENSNLEG00000012853	1 retrocopy	retro_nleu_467,
Petromyzon marinus	ENSPMAG00000009335	1 retrocopy	retro_pmar_25,
Pongo abelii	ENSPPYG00000006573	1 retrocopy	retro_pabe_618,
Pan troglodytes	ENSPTRG00000007188	1 retrocopy	retro_ptro_510,