RetrogeneDB ID: retro_ggor_2816

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:80710708..80711454(+)
• Located in intron of: ENSGGOG00000000374

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEPT7
• Ensembl ID: ENSGGOG00000001175
• Aliases: None
• Description: None

Sequence

>retro_ggor_2816
AGTATCATCTCACTTATTGCCACAGAAGACACACTCACACCAGAGGAATGCTAACAGTTTAAAAAACAGATAATGAAAGA
AATCCAAGAACATAAAATTAAAATATATGAATTTCTAGAAACATAATAAAGAAGAAAATAAACTTGTTAAAAAGATAAAG
GACCATTTACCTGTTGGTGTGGTAGGTAGTAATACTATCATCGAAGTTAATGGCAAAACGATCAGAGGAAAGCAGCATCC
TTGAGGTACTGCTGAACTTGAAAATGGTGAACATTGTGATTTTACAATTCTAAGAAATATGTTGATAAGAACACACAAGC
AGGACTTGAAAGAGGTTACTAATAATGTCCACTATAAGAACTACAGAAGCAGAAAACTGGCAGCTGTGACATATAATGGA
ATTGATAACAATAAGAATAAAGGGCAGCTGACCAAGAGCCCTCCGGCACAAATGGAAGAAGAAAGAAGGGAGCATGTAGC
TAAAATGAAGAAGATGGAGCTGGAGATGGAGCAGGTGTTTGAGATGAAGGTCAAAGAAAAAGTTCAAAACTGAAGAACTC
TGAAGCTGAGCTCCAGCGGCACCATGAGCAAATGAAAAGGAATTTGGAAGCACAGCATAAACAATAAGAGGAAAAACGTC
ATCAGTTAGAGGATGAGAAAGCAAACTGGGAAGCTCAACAACGTATTTTAGAACAACGAACTCTTCGAGAACCTTGGAAA
AGAACAAGAAGAAAGGAAGATCTTTT

Alignment

ORF - retro_ggor_2816 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.61 %
• Parental protein coverage: 64.6 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  NIIPLIAKADTLTPEECQQFKKQIMKEIQEH-KIKIYEFPETDDEEENKLVKKIKDRLPLAVVGSNTIIE
          .II.LIA..DTLTPEEC.QFKKQIMKEIQEH.K.K...F......EENKLVKKIKD.LP..VVGSNTIIE
Retrocopy SIISLIATEDTLTPEEC*QFKKQIMKEIQEH>KLKYMNF*K-HNKEENKLVKKIKDHLPVGVVGSNTIIE

Parental  VNGKRVRGRQYPWGVAEVENGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKLAAVTYNGVDNNK
          VNGK..RG.Q.P.G.AE.ENGEHCDFTILRNMLIRTH.QDLK.VTNNVHY.NYRSRKLAAVTYNG.DNNK
Retrocopy VNGKTIRGKQHP*GTAELENGEHCDFTILRNMLIRTHKQDLKEVTNNVHYKNYRSRKLAAVTYNGIDNNK

Parental  NKGQLTKSPLAQMEEERREHVAKMKKMEMEMEQVFEMKVKEKVQ-KLKDSEAELQRRHEQMKKNLEAQHK
          NKGQLTKSP.AQMEEERREHVAKMKKME.EMEQVFEMKVKEKVQ.KLK.SEAELQR.HEQMK.NLEAQHK
Retrocopy NKGQLTKSPPAQMEEERREHVAKMKKMELEMEQVFEMKVKEKVQ<KLKNSEAELQRHHEQMKRNLEAQHK

Parental  ELEEKRRQFEDEKANWEAQQRILEQQ-NSSRTLEKNKKKGKIF
          ..EEKR.Q.EDEKANWEAQQRILEQ..NSSRTLEKNKKKG..F
Retrocopy Q*EEKRHQLEDEKANWEAQQRILEQR<NSSRTLEKNKKKGRSF

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	143.48 RPM
SRP007412_cerebellum	0.00 RPM	75.64 RPM
SRP007412_heart	0.00 RPM	20.11 RPM
SRP007412_kidney	0.00 RPM	43.30 RPM
SRP007412_liver	0.00 RPM	49.56 RPM
SRP007412_testis	0.52 RPM	88.58 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_2816 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2816 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4202
Pan troglodytes	retro_ptro_2853
Pongo abelii	retro_pabe_3438

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012276	2 retrocopies	retro_cjac_1259, retro_cjac_3809,
Echinops telfairi	ENSETEG00000015624	3 retrocopies	retro_etel_1263, retro_etel_282, retro_etel_517,
Homo sapiens	ENSG00000122545	2 retrocopies	retro_hsap_3810, retro_hsap_4202,
Gorilla gorilla	ENSGGOG00000001175	1 retrocopy	retro_ggor_2816 ,
Gorilla gorilla	ENSGGOG00000013659	1 retrocopy	retro_ggor_2728,
Monodelphis domestica	ENSMODG00000021167	1 retrocopy	retro_mdom_1672,
Nomascus leucogenys	ENSNLEG00000001673	1 retrocopy	retro_nleu_2152,
Otolemur garnettii	ENSOGAG00000006015	1 retrocopy	retro_ogar_1193,
Pongo abelii	ENSPPYG00000017639	1 retrocopy	retro_pabe_3438,
Pan troglodytes	ENSPTRG00000019080	2 retrocopies	retro_ptro_2585, retro_ptro_2853,
Rattus norvegicus	ENSRNOG00000006545	9 retrocopies	retro_rnor_1424, retro_rnor_1425, retro_rnor_1426, retro_rnor_1427, retro_rnor_1428, retro_rnor_1431, retro_rnor_1445, retro_rnor_1446, retro_rnor_821,
Sarcophilus harrisii	ENSSHAG00000003788	1 retrocopy	retro_shar_258,
Ictidomys tridecemlineatus	ENSSTOG00000021378	3 retrocopies	retro_itri_1332, retro_itri_1736, retro_itri_1771,