RetrogeneDB ID: retro_ggor_2234

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:13183680..13184115(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000198668
• Ensembl ID: ENSGGOG00000000212
• Aliases: None
• Description: None

Sequence

>retro_ggor_2234
AAACTGACTGAAGAGGAGATTCCAGAATTCATAGAAGCTTTTTCCCTATTTGACAGAGACAATGATGGAACTATAACAAC
AAAGGAATTGGAAACGATAATGAGGTCTCTTGGGTAGAATCCCACGAAAGCAGGGTTACCAGACATGATTAATGAAGTAG
ATGCTGATGGTAATAGAACGGACTCTCCTGAATTTCTGACAATGATGGCAAGAAAAATGAAAGACACACAAAGTGAAGAA
GAAATTAGAGAAGCATTCCTTGTGTTTGATAAGGATGGCAATGGCTGTATCAGTGCAGCAGAACTTTGCCATGTGATGAC
AAACCCCAGAGAGAAGCTAACAGATGACAAGGTTGATGAAATGATCAGGGAAACAGGTATTGATGGTGATGGTCAGGTAA
ACTAGGAAGAGTTTGTACAAATGATGACAGCGAAG

Alignment

ORF - retro_ggor_2234 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.19 %
• Parental protein coverage: 97.99 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMM
          .LTEE.I.EF.EAFSLFD.D.DGTITTKEL.T.MRSLG.NPT.A.L.DMINEVDADGN.T.D.PEFLTMM
Retrocopy KLTEEEIPEFIEAFSLFDRDNDGTITTKELETIMRSLG*NPTKAGLPDMINEVDADGNRT-DSPEFLTMM

Parental  ARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFV
          ARKMKDT.SEEEIREAF.VFDKDGNG.ISAAEL.HVMTN..EKLTD..VDEMIRE..IDGDGQVN.EEFV
Retrocopy ARKMKDTQSEEEIREAFLVFDKDGNGCISAAELCHVMTNPREKLTDDKVDEMIRETGIDGDGQVN*EEFV

Parental  QMMTAK
          QMMTAK
Retrocopy QMMTAK

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	3354.19 RPM
SRP007412_cerebellum	0.00 RPM	1156.57 RPM
SRP007412_heart	0.06 RPM	192.15 RPM
SRP007412_kidney	0.00 RPM	327.19 RPM
SRP007412_liver	0.00 RPM	148.80 RPM
SRP007412_testis	0.10 RPM	611.45 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_2234 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2234 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1785
Pan troglodytes	retro_ptro_1195
Pongo abelii	retro_pabe_1466
Callithrix jacchus	retro_cjac_2564

---

Parental genes homology:

Parental genes homology involve 24 parental genes, and 52 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000015712	1 retrocopy	retro_acar_45,
Ailuropoda melanoleuca	ENSAMEG00000008565	3 retrocopies	retro_amel_1209, retro_amel_1562, retro_amel_421,
Bos taurus	ENSBTAG00000014583	2 retrocopies	retro_btau_113, retro_btau_135,
Canis familiaris	ENSCAFG00000029151	4 retrocopies	retro_cfam_121, retro_cfam_164, retro_cfam_225, retro_cfam_68,
Cavia porcellus	ENSCPOG00000001612	1 retrocopy	retro_cpor_1316,
Erinaceus europaeus	ENSEEUG00000000140	1 retrocopy	retro_eeur_468,
Echinops telfairi	ENSETEG00000009377	5 retrocopies	retro_etel_1062, retro_etel_1542, retro_etel_1812, retro_etel_587, retro_etel_854,
Felis catus	ENSFCAG00000004995	1 retrocopy	retro_fcat_1726,
Homo sapiens	ENSG00000160014	3 retrocopies	retro_hsap_1255, retro_hsap_1785, retro_hsap_59,
Gorilla gorilla	ENSGGOG00000000212	4 retrocopies	retro_ggor_187, retro_ggor_2234 , retro_ggor_522, retro_ggor_988,
Gorilla gorilla	ENSGGOG00000028540	1 retrocopy	retro_ggor_2592,
Loxodonta africana	ENSLAFG00000001155	5 retrocopies	retro_lafr_100, retro_lafr_156, retro_lafr_631, retro_lafr_646, retro_lafr_86,
Microcebus murinus	ENSMICG00000013180	3 retrocopies	retro_mmur_1032, retro_mmur_1447, retro_mmur_501,
Myotis lucifugus	ENSMLUG00000010528	1 retrocopy	retro_mluc_2477,
Monodelphis domestica	ENSMODG00000009222	1 retrocopy	retro_mdom_1126,
Mustela putorius furo	ENSMPUG00000005261	1 retrocopy	retro_mputfur_404,
Mus musculus	ENSMUSG00000019370	3 retrocopies	retro_mmus_2879, retro_mmus_3448, retro_mmus_454,
Nomascus leucogenys	ENSNLEG00000002752	2 retrocopies	retro_nleu_1407, retro_nleu_3097,
Otolemur garnettii	ENSOGAG00000014764	2 retrocopies	retro_ogar_2085, retro_ogar_3311,
Procavia capensis	ENSPCAG00000005751	1 retrocopy	retro_pcap_7,
Petromyzon marinus	ENSPMAG00000003323	1 retrocopy	retro_pmar_12,
Pongo abelii	ENSPPYG00000010154	4 retrocopies	retro_pabe_1106, retro_pabe_1466, retro_pabe_3238, retro_pabe_3676,
Pelodiscus sinensis	ENSPSIG00000013173	1 retrocopy	retro_psin_9,
Ictidomys tridecemlineatus	ENSSTOG00000014352	1 retrocopy	retro_itri_1018,