RetrogeneDB ID: retro_ggor_450

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:153680294..153680878(-)
• Located in intron of: ENSGGOG00000034921

Retrocopy information

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

Parental gene information

• Parental gene symbol: FYTTD1
• Ensembl ID: ENSGGOG00000011665
• Aliases: None
• Description: None

Sequence

>retro_ggor_450
CCACGTCTAAGTGACAAGAATACAGAACACTATTTTCCAGTGTTAAAAAGAAAGGCAAGCCTTCTGAAACAAAATGAAGT
GCATAGGAAACCAGTTGCCGTTCTCAAGAGACCTAACCAGCTAAACAGAAAAAATAACATTATGTCCAGTTTTACCAGGA
GAGGAAATAAATTAAGCCATCAGAAAGACACTTCACAGGTAACTTTTCTTTTCAGAAGAGGCCTGAAGAAGGTTCAGGCC
CAGTTGAACACGGAACAACTGCTAGATGTAGTAGCAAAGAGAACTAGTCAATGCCAGACTTCTATCACAAACGCAGGAAT
CTGACTGTATCTATTGATAACCCTGGAGCAGTACAATGCCCAGCAACTGAGAAACCATGATTAATTCATACTGCTATACC
TTCATTCTTTAAAACACGGCAGCAAGAGAATGTAAAGAAAGTTCCAACGGGTGTTCCCCTACAATTTGACACAAATAGTG
TTGGAAAACAGACAGAGATGGCTTTGAATGAGCACTTTGGGATCCTGAGAAAACAAAGAGCCACTCTCACATATAACAAA
GGAGGAAGTCACTTTTTAACTGTG

Alignment

ORF - retro_ggor_450 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.65 %
• Parental protein coverage: 61.32 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PPLSDKNIEQYFPVLKRKANLLRQNEGQRKPVAALKRPSQLSRKNNIPANFTRSGNKLNHQKDTRQATFL
          P.LSDKN.E.YFPVLKRKA.LL.QNE..RKPVA.LKRP.QL.RKNNI...FTR.GNKL.HQKDT.Q.TFL
Retrocopy PRLSDKNTEHYFPVLKRKASLLKQNEVHRKPVAVLKRPNQLNRKNNIMSSFTRRGNKLSHQKDTSQVTFL

Parental  FRRGL-KVQAQLNTEQLLDDVVAKRTRQWRTSTTNGGI-LTVSIDNPGAVQCPVTQKPRLTRTAVPSFLT
          FRRGL.KVQAQLNTEQLL.DVVAKRT.Q..TS.TN.GI.LTVSIDNPGAVQCP.T.KP.L..TA.PSF..
Retrocopy FRRGLKKVQAQLNTEQLL-DVVAKRTSQCQTSITNAGI<LTVSIDNPGAVQCPATEKP*LIHTAIPSFFK

Parental  KREQSDVKKVPKGVPLQFDINSVGKQTGMTLNERFGILKEQRATLTYNKGGSRFVTV
          .R.Q..VKKVP.GVPLQFD.NSVGKQT.M.LNE.FGIL..QRATLTYNKGGS.F.TV
Retrocopy TRQQENVKKVPTGVPLQFDTNSVGKQTEMALNEHFGILRKQRATLTYNKGGSHFLTV

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	27.91 RPM
SRP007412_cerebellum	0.00 RPM	23.28 RPM
SRP007412_heart	0.03 RPM	11.41 RPM
SRP007412_kidney	0.00 RPM	30.95 RPM
SRP007412_liver	0.03 RPM	21.63 RPM
SRP007412_testis	0.00 RPM	115.72 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_450 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_450 has 5 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_476
Pan troglodytes	retro_ptro_357
Pongo abelii	retro_pabe_258
Macaca mulatta	retro_mmul_577
Callithrix jacchus	retro_cjac_1639

---

Parental genes homology:

Parental genes homology involve 17 parental genes, and 31 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014874	1 retrocopy	retro_btau_1572,
Canis familiaris	ENSCAFG00000029695	1 retrocopy	retro_cfam_70,
Choloepus hoffmanni	ENSCHOG00000002881	2 retrocopies	retro_chof_1068, retro_chof_114,
Callithrix jacchus	ENSCJAG00000016488	2 retrocopies	retro_cjac_1639, retro_cjac_623,
Cavia porcellus	ENSCPOG00000011463	2 retrocopies	retro_cpor_1039, retro_cpor_586,
Dasypus novemcinctus	ENSDNOG00000007807	6 retrocopies	retro_dnov_1010, retro_dnov_1224, retro_dnov_1311, retro_dnov_2013, retro_dnov_442, retro_dnov_570,
Erinaceus europaeus	ENSEEUG00000001433	1 retrocopy	retro_eeur_13,
Echinops telfairi	ENSETEG00000000700	1 retrocopy	retro_etel_765,
Homo sapiens	ENSG00000122068	2 retrocopies	retro_hsap_4291, retro_hsap_476,
Gorilla gorilla	ENSGGOG00000011665	1 retrocopy	retro_ggor_450 ,
Macaca mulatta	ENSMMUG00000006626	1 retrocopy	retro_mmul_577,
Nomascus leucogenys	ENSNLEG00000015547	2 retrocopies	retro_nleu_1047, retro_nleu_889,
Pongo abelii	ENSPPYG00000014456	2 retrocopies	retro_pabe_258, retro_pabe_3497,
Pan troglodytes	ENSPTRG00000015796	1 retrocopy	retro_ptro_357,
Sorex araneus	ENSSARG00000009996	1 retrocopy	retro_sara_148,
Sarcophilus harrisii	ENSSHAG00000005704	1 retrocopy	retro_shar_242,
Tupaia belangeri	ENSTBEG00000005595	4 retrocopies	retro_tbel_2469, retro_tbel_2943, retro_tbel_4257, retro_tbel_791,