RetrogeneDB ID: retro_ggor_445

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:147651440..147652219(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: QRSL1
• Ensembl ID: ENSGGOG00000008261
• Aliases: None
• Description: None

Sequence

>retro_ggor_445
ATGCTGGGCCAGACCCTCTGAGAAGTTTCTGCAGCACTGAAACAAGGCCAGATTACGCCAACAGAGCTCTGTCAAAAATG
TCTCTCTCTTATCAAGAAGACCAAGTTTCTACATGCCTACATTACTGTATCAGAAGAGGTGGCCTTAAAACAAGCTGAAG
AATCAGAAAAGAGATATAAGCATGAACAGTCACTTGGGGATTTAGATGGAATTCCTATTGCAGTAAAAGACAACTTTAGC
ACATCTGGCATTGAGACAACATGTGCATCAAATATGCTGAAAGGTTATGTACCACCTTATAATGCTAGAGTAGTTTCGAA
GTTGTTGGATCAGGGAGCTCTACTAATAGGAAAAACAAATTTAGATGAGTTTGCTATTGGATCTGGAAGAACAGATGGTG
TGTTTGGACCAGTTAAAAACCCCTGAGTTATTCAAAATAATATAGAGAAAAGAGGAAGCAGAATCCCCACAGCAAGAATG
AAGATTCAGACTGGCTGATAACTGGAGGAAGCTCAGGTGGGAGTGCGGCTGCTATGTCGGCTTTAGGATCAGCTACAGGA
GGATCGATCAGAAATCCTGCTGCCCACTGCAGGCTTGCTAGTTCCAAACCAAGCTATGGTTTAGTTTCCCATCATGGTCT
CATTCTCCTGGTGAATTTGATGGATGTGCCAGGAATCTTAACCAGATGTGTGGATGATGCAGCAATTGTGTTGAGTGTAC
AGGCTGGACATGACACCAATGATTATACCGCAGTATAGGACCCTATTAAACCATTTATT

Alignment

ORF - retro_ggor_445 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.34 %
• Parental protein coverage: 50.57 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MLGRTLREVSAALKQGQITPTELCQKCLSLIKKTEFLNAYITVSEEVALKQAEESEKRYKNGQSLGDLDG
          MLG.TL.EVSAALKQGQITPTELCQKCLSLIKKT.FL.AYITVSEEVALKQAEESEKRYK..QSLGDLDG
Retrocopy MLGQTL*EVSAALKQGQITPTELCQKCLSLIKKTKFLHAYITVSEEVALKQAEESEKRYKHEQSLGDLDG

Parental  IPIAVKDNFSTSGIETTCASNMLKGYIPPYNATVVQKLLDQGALLMGKTNLDEFAMGSGSTDGVFGPVKN
          IPIAVKDNFSTSGIETTCASNMLKGY.PPYNA.VV.KLLDQGALL.GKTNLDEFA.GSG.TDGVFGPVKN
Retrocopy IPIAVKDNFSTSGIETTCASNMLKGYVPPYNARVVSKLLDQGALLIGKTNLDEFAIGSGRTDGVFGPVKN

Parental  P-WSYSKQYREKRKQNPHSENEDSDWLITGGSSGGSAAAVSAFTCYAALGSDTGGSTRNPAAHCGLVGFK
          P..SYSK.YREKRKQNPHS.NEDSDWLIT....GGS.....A.....ALGS.TGGS.RNPAAHC.L...K
Retrocopy P<LSYSK*YREKRKQNPHSKNEDSDWLIT----GGSSGGSAA--AMSALGSATGGSIRNPAAHCRLASSK

Parental  PSYGLVSRHGLIPLVNSMDVPGILTRCVDDAAIVLGALAGPDPRDSTTVHDPINKPFM
          PSYGLVS.HGLI.LVN.MDVPGILTRCVDDAAIVL...AG.D..D.T.V.DPI.KPF.
Retrocopy PSYGLVSHHGLILLVNLMDVPGILTRCVDDAAIVLSVQAGHDTNDYTAV*DPI-KPFI

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	7.48 RPM
SRP007412_cerebellum	0.00 RPM	7.72 RPM
SRP007412_heart	0.00 RPM	4.47 RPM
SRP007412_kidney	0.00 RPM	14.07 RPM
SRP007412_liver	0.03 RPM	6.23 RPM
SRP007412_testis	0.00 RPM	16.16 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_445 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_445 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_466
Pan troglodytes	retro_ptro_351
Pongo abelii	retro_pabe_268

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000017557	3 retrocopies	retro_btau_476, retro_btau_493, retro_btau_616,
Choloepus hoffmanni	ENSCHOG00000001036	1 retrocopy	retro_chof_2382,
Callithrix jacchus	ENSCJAG00000006200	4 retrocopies	retro_cjac_1421, retro_cjac_3781, retro_cjac_3919, retro_cjac_692,
Cavia porcellus	ENSCPOG00000021670	1 retrocopy	retro_cpor_179,
Homo sapiens	ENSG00000130348	3 retrocopies	retro_hsap_1321, retro_hsap_466, retro_hsap_514,
Gorilla gorilla	ENSGGOG00000008261	3 retrocopies	retro_ggor_1031, retro_ggor_445 , retro_ggor_474,
Macaca mulatta	ENSMMUG00000008330	2 retrocopies	retro_mmul_429, retro_mmul_675,
Nomascus leucogenys	ENSNLEG00000013383	2 retrocopies	retro_nleu_1403, retro_nleu_1550,
Pongo abelii	ENSPPYG00000016883	3 retrocopies	retro_pabe_1100, retro_pabe_230, retro_pabe_268,
Pan troglodytes	ENSPTRG00000018462	2 retrocopies	retro_ptro_351, retro_ptro_902,