RetrogeneDB ID: retro_ggor_41

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:69744333..69744708(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025529
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: EIF3J
• Ensembl ID: ENSGGOG00000000548
• Aliases: None
• Description: None

Sequence

>retro_ggor_41
GCAAAGGCAACTTTTGGTGTTAAGACTACTGTATATGGATCGGATGCTGTAAACCCATCTTCAAGGGATGACCTTACAGA
GTTTGGAAAGTTACTAAAAGATAAAATTACGCAAAATAAAAAGTCACTATATTATGCCAGTTTTTTGGAAGTCTTAGTTG
GAGATGTGTGTATGTCATTGGAAACTGATGACTTGAAAAAGGTTCTCAATGCATTGTGCTTTGAAGTGAAAAACAGAAGC
AAGCAAAGCCAAGCCAAAAAGAAGAACAAAGGTATGGTTCCTGGAGGGAGATTAAAAGCCACCATGACAAATGATCTGGT
AAATTATGGTGGTGATGATGCAGGGTATGCACAAGACTATGAAAATGTCATGTGA

Alignment

ORF - retro_ggor_41 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.65 %
• Parental protein coverage: 56.7 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AKETFGVNNTVYGIDAMNPSSRDDFTEFGKLLKDKITQYEKSLYYASFLEVLVRDVCISLEIDDLKKITN
          AK.TFGV..TVYG.DA.NPSSRDD.TEFGKLLKDKITQ..KSLYYASFLEVLV.DVC.SLE.DDLKK..N
Retrocopy AKATFGVKTTVYGSDAVNPSSRDDLTEFGKLLKDKITQNKKSLYYASFLEVLVGDVCMSLETDDLKKVLN

Parental  SLTVLCSEKQKQEKQSKAKKKKKGVVPGGGLKATMKDDLADYGGYDGGYVQDYEDFM
          .L...C.E.....KQS.AKKK.KG.VPGG.LKATM..DL..YGG.D.GY.QDYE..M
Retrocopy AL---CFEVKNRSKQSQAKKKNKGMVPGGRLKATMTNDLVNYGGDDAGYAQDYENVM

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	17.65 RPM
SRP007412_cerebellum	0.00 RPM	12.37 RPM
SRP007412_heart	0.00 RPM	5.38 RPM
SRP007412_kidney	0.00 RPM	19.22 RPM
SRP007412_liver	0.00 RPM	11.05 RPM
SRP007412_testis	0.00 RPM	41.34 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_41 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_41 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4189
Pongo abelii	retro_pabe_3429

---

Parental genes homology:

Parental genes homology involve 13 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002412	1 retrocopy	retro_cjac_589,
Cavia porcellus	ENSCPOG00000012396	3 retrocopies	retro_cpor_1357, retro_cpor_1358, retro_cpor_500,
Equus caballus	ENSECAG00000008716	1 retrocopy	retro_ecab_635,
Echinops telfairi	ENSETEG00000005052	1 retrocopy	retro_etel_1376,
Homo sapiens	ENSG00000104131	1 retrocopy	retro_hsap_4189,
Gorilla gorilla	ENSGGOG00000000548	2 retrocopies	retro_ggor_1687, retro_ggor_41 ,
Macropus eugenii	ENSMEUG00000010372	1 retrocopy	retro_meug_256,
Microcebus murinus	ENSMICG00000005006	1 retrocopy	retro_mmur_100,
Monodelphis domestica	ENSMODG00000017696	1 retrocopy	retro_mdom_141,
Mus musculus	ENSMUSG00000027236	1 retrocopy	retro_mmus_18,
Nomascus leucogenys	ENSNLEG00000005568	1 retrocopy	retro_nleu_2848,
Oryctolagus cuniculus	ENSOCUG00000005376	1 retrocopy	retro_ocun_1350,
Otolemur garnettii	ENSOGAG00000004694	1 retrocopy	retro_ogar_1227,