RetrogeneDB ID: retro_ggor_29

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 14:36130457..36130973(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000023316
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CHMP4B
• Ensembl ID: ENSGGOG00000007775
• Aliases: None
• Description: None

Sequence

>retro_ggor_29
ATGTTACGCAAGAAACAGGAGTTCCTGGAGAAGAAAATCGAGCAGAGGCACGGCACCAAAAACAAGGGCGTGGCCCTCCA
GGCACTGAAGCGTAAGAAGAGGTATGAGAAGCAGCTGGCGCAGATCGACGGCACATTATCAACCATCGAGTTCCAGCAGC
AGGCTCTGGAGAATGCCAACACCAATACCGAGGTGCTCAGGAACATGGGCTCTGCCGCCAAGGCCAAGAAGGCGGCCCAC
TACAACATGGACATCGATAAAGTTGATGAGTTAATGCAGGACATTGCTGACCAACAAGAACTTGGGGAGGAGATTTCAAC
AGCAATTTCGAAACCTGTAGGGTTTGGAGAAAAGTCTGACGAGGATGAGCTCATGGCGGAATTAGAAGAACTAGAACAGG
AGGAACCAGACAAGAATTTGCTGGAAATCAGTGGCCCCGAAACAGTCCCTCTACCAAATGTTCCCTCTATAGCCCTACCA
TCAAAACCTGCCAAGAAGAGGAAGACGACGACATGA

Alignment

ORF - retro_ggor_29 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.63 %
• Parental protein coverage: 74.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LEKKIE-QELTAAKKHGTKNKRAALQALKRKKRYEKQLAQIDGTLSTIEFQREALENANTNTEVLKNMGY
          L.KK.E..E......HGTKNK..ALQALKRKKRYEKQLAQIDGTLSTIEFQ..ALENANTNTEVL.NMG.
Retrocopy LRKKQEFLEKKIEQRHGTKNKGVALQALKRKKRYEKQLAQIDGTLSTIEFQQQALENANTNTEVLRNMGS

Parental  AAKAMKAAHDNMDIDKVDELMQDIADQQELAEEISTAISKPVGFGEEFDEDELMAELEELEQEELDKNLL
          AAKA.KAAH.NMDIDKVDELMQDIADQQEL.EEISTAISKPVGFGE..DEDELMAELEELEQEE.DKNLL
Retrocopy AAKAKKAAHYNMDIDKVDELMQDIADQQELGEEISTAISKPVGFGEKSDEDELMAELEELEQEEPDKNLL

Parental  EISGPETVPLPNVPSIALPSKPAKKKE
          EISGPETVPLPNVPSIALPSKPAKK..
Retrocopy EISGPETVPLPNVPSIALPSKPAKKRK

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	154.99 RPM
SRP007412_cerebellum	0.24 RPM	90.66 RPM
SRP007412_heart	0.84 RPM	52.53 RPM
SRP007412_kidney	1.47 RPM	93.51 RPM
SRP007412_liver	0.69 RPM	46.64 RPM
SRP007412_testis	0.83 RPM	106.29 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_29 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_29 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Macaca mulatta	retro_mmul_2178

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Parental genes homology:

Parental genes homology involve 17 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009038	1 retrocopy	retro_amel_1612,
Bos taurus	ENSBTAG00000013387	1 retrocopy	retro_btau_1103,
Canis familiaris	ENSCAFG00000007478	1 retrocopy	retro_cfam_1304,
Choloepus hoffmanni	ENSCHOG00000007288	1 retrocopy	retro_chof_2518,
Equus caballus	ENSECAG00000008311	1 retrocopy	retro_ecab_496,
Felis catus	ENSFCAG00000025893	1 retrocopy	retro_fcat_1835,
Homo sapiens	ENSG00000101421	1 retrocopy	retro_hsap_1339,
Gorilla gorilla	ENSGGOG00000007775	1 retrocopy	retro_ggor_29 ,
Gorilla gorilla	ENSGGOG00000016091	1 retrocopy	retro_ggor_1697,
Macaca mulatta	ENSMMUG00000008084	1 retrocopy	retro_mmul_2178,
Mustela putorius furo	ENSMPUG00000017821	2 retrocopies	retro_mputfur_1302, retro_mputfur_697,
Nomascus leucogenys	ENSNLEG00000010020	1 retrocopy	retro_nleu_1822,
Pongo abelii	ENSPPYG00000010931	1 retrocopy	retro_pabe_1111,
Pan troglodytes	ENSPTRG00000013408	1 retrocopy	retro_ptro_915,
Pteropus vampyrus	ENSPVAG00000010293	1 retrocopy	retro_pvam_973,
Rattus norvegicus	ENSRNOG00000046585	1 retrocopy	retro_rnor_61,
Tarsius syrichta	ENSTSYG00000013212	1 retrocopy	retro_tsyr_1453,