RetrogeneDB ID: retro_ggor_1653

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2a:103965552..103966152(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C6ORF106
• Ensembl ID: ENSGGOG00000000388
• Aliases: None
• Description: None

Sequence

>retro_ggor_1653
ATGAAGGGCATGGACATGGACCGGGAGCTGGAGCTGATGCAGAATTTCAGCTGCCTGAGCACCACCAACAAAGACGTGCT
CATCTCCAAGTTCCAGAGGCTGCTCGGCTTCCAGCTCAACCCTGCCAGTTGCGCCTTCTTCCTGGACAGGACCAACTGGA
ACCTACAAGCAGCAATTGGTGCCTCTTATGCCTTTGAGAGCTCCAACATCAGTGTGCCCTCTGTGTCCTTTGTTGAAGAT
GTCACCCTAGAGGAAGGGTAGTCAATACCTCCTGATACTCAGTTTGTAAAAACTTGGTGGATCCAGAATTCTGTGGCAGA
GGCCTGGCCTCCAGGGGTTTGTCCTAAATATGTCGGGGGAGACCAAGTTGGACGTGTGAACATGCTGATGGTGAGATTGC
TAGAGCCGCAAGAGATTACAGATGTTATTGTCCAGATGTGCAGCCCCAGGAGAGCAGGAATGTATCAGGGACGGTGACGG
ATGTGCACTGCTACAGGACTCTACTATGGAGATGTCATCTGGGTGATTCTCAGTGTGGAGGTGGGTGGACTTTTAGAAGT
AACGCAGCAGCTGTCATCTTTTGAAACGGAGTTCAACACA

Alignment

ORF - retro_ggor_1653 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.5 %
• Parental protein coverage: 67.11 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEGMDVDLDPELMQKFSCLGTTDKDVLISEFQRLLGFQLNPAGCAFFLDMTNWNLQAAIGAYYDFESPNI
          M.GMD.D...ELMQ.FSCL.TT.KDVLIS.FQRLLGFQLNPA.CAFFLD.TNWNLQAAIGA.Y.FES.NI
Retrocopy MKGMDMDRELELMQNFSCLSTTNKDVLISKFQRLLGFQLNPASCAFFLDRTNWNLQAAIGASYAFESSNI

Parental  SVPSMSFVEDVTIGEGESIPPDTQFVKTWRIQNSGAEAWPPGVCLKYVGGDQFGHVNMVMVRSLEPQEIA
          SVPS.SFVEDVT..EG.SIPPDTQFVKTW.IQNS.AEAWPPGVC.KYVGGDQ.G.VNM.MVR.LEPQEI.
Retrocopy SVPSVSFVEDVTLEEG*SIPPDTQFVKTWWIQNSVAEAWPPGVCPKYVGGDQVGRVNMLMVRLLEPQEIT

Parental  DVSVQMCSPSRAGMYQGQWRMCTATGLYYGDVIWVILSVEVGGLLGVTQQLSSFETEFNT
          DV.VQMCSP.RAGMYQG..RMCTATGLYYGDVIWVILSVEVGGLL.VTQQLSSFETEFNT
Retrocopy DVIVQMCSPRRAGMYQGR*RMCTATGLYYGDVIWVILSVEVGGLLEVTQQLSSFETEFNT

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	234.88 RPM
SRP007412_cerebellum	0.04 RPM	195.81 RPM
SRP007412_heart	0.00 RPM	68.04 RPM
SRP007412_kidney	0.04 RPM	142.17 RPM
SRP007412_liver	0.00 RPM	78.29 RPM
SRP007412_testis	0.00 RPM	168.87 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_1653 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1653 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000034493	1 retrocopy	retro_btau_1343,
Callithrix jacchus	ENSCJAG00000015304	1 retrocopy	retro_cjac_2788,
Homo sapiens	ENSG00000196821	1 retrocopy	retro_hsap_2137,
Gorilla gorilla	ENSGGOG00000000388	1 retrocopy	retro_ggor_1653 ,
Microcebus murinus	ENSMICG00000013442	1 retrocopy	retro_mmur_1615,
Macaca mulatta	ENSMMUG00000022824	1 retrocopy	retro_mmul_2155,
Nomascus leucogenys	ENSNLEG00000008387	2 retrocopies	retro_nleu_1933, retro_nleu_2739,
Otolemur garnettii	ENSOGAG00000011264	1 retrocopy	retro_ogar_3245,
Ochotona princeps	ENSOPRG00000009350	1 retrocopy	retro_opri_559,
Pongo abelii	ENSPPYG00000016519	2 retrocopies	retro_pabe_1265, retro_pabe_1928,
Pan troglodytes	ENSPTRG00000018068	1 retrocopy	retro_ptro_1564,