RetrogeneDB ID: retro_ggor_1576

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 21:19957377..19958521(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBXW11
• Ensembl ID: ENSGGOG00000007880
• Aliases: None
• Description: None

Sequence

>retro_ggor_1576
AACACTTCAGTTCTGGAAGATCGAGATGAAGATAAGTCCCCAAAGAAAAATACTCCTTGGCAGATAAGTAATGGAACATC
ATTTGTGATCATCTCCAGAAAGAGGCCATCAGAAGGAAACTATCAAAAAGAAAAAGACTTGTATATTCAATATTTTAACC
AGTGGTCTGAATCAGATCAGTTGGAATTTGTGGAACATCTTATTTCACGAATGTGTCATTATCAGCATGGACGTATCAAC
TCTTACCTGAAGCCCATGTTGCAGCAAGACTTTACTACTGCTTTACCCGAGCAAGGCTTAGATCACATAGCAGAAAACAT
TCTTTTGTACCTGGTTACCAGGTCTCTGTGTGCAGCAGAGCTGGTATGTAAAGGATGGCAGGGATTGATCTCAGAATGAA
TGCTTTGGAAGAAGCTGATTGAATGAATGGTATACACTGATCCCCTATGGAAAGGACTTTCAGAAAGAAGAGGGTGGGAT
CAGTACCTGTTTCAAAACAGACCCACATCTAGCCCTCCAAATTCATTTTATAGGTCATTATACCCAAACATTATCCAGGA
TATAGAGACTATAGAATCCACCTAGCGGTGTGGCCGCCACAGCTTGCAGAGGATTCAGTACCACTCTGAAAATAGTAAAG
GTGTCTATGGTTTACAGTACAATGATGAAAAAATTATCAGTGGCCTACAAGATAATTATATTAAGATTTGGGATAAAACC
AGCCTCGAATGTTTGAAAGTGTTAATGACCACACAGGCTCTGTCCTCTGTCTGCAGTAGGATGAGCGTGTCATTGTAACT
GGCTCTTCGGATTCTACGGTGAGAGTGTGGGAAGTGAACACGGGTGAAGTTCTTAACACATTAATCCACCACAATGAGGA
TGTACTGCACTTACGCTTCAGCAGTGGACTGATGGTGACCTGTTCAAGGACCGCTCCATTGCTGTGTGGGACATGGCTTC
TGCGACCGATATCACTTTACGCGGTGTCCTGGTTGGCCACTGAGCTGCTGTCAACGTAGTAGACTTTGACGAGAAATACA
TCGTGTCTGCCTCTGGTGACAGGACCATCAAAGTCTGGAGCATGAGCACCTGTGAATTTGCTCGTACTCTTAATGGGCAC
AAGCGAGTCTTGTCTCCAGTACAG

Alignment

ORF - retro_ggor_1576 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.94 %
• Parental protein coverage: 74.32 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NTSVMEDQNEDESPKKNTLWQISNGTSSVIVSRKRPSEGNYQKEKDLCIKYFDQWSESDQVEFVEHLISR
          NTSV.ED..ED.SPKKNT.WQISNGTS.VI.SRKRPSEGNYQKEKDL.I.YF.QWSESDQ.EFVEHLISR
Retrocopy NTSVLEDRDEDKSPKKNTPWQISNGTSFVIISRKRPSEGNYQKEKDLYIQYFNQWSESDQLEFVEHLISR

Parental  MCHYQHGHINSYLKPMLQRDFITALPEQGLDHIAENILSYLDARSLCAAELVCKEWQRVISEGMLWKKLI
          MCHYQHG.INSYLKPMLQ.DF.TALPEQGLDHIAENIL.YL..RSLCAAELVCK.WQ..ISE.MLWKKLI
Retrocopy MCHYQHGRINSYLKPMLQQDFTTALPEQGLDHIAENILLYLVTRSLCAAELVCKGWQGLISE*MLWKKLI

Parental  ERMVRTDPLWKGLSERRGWDQYLFKNRPTDGPPNSFYRSLYPKIIQDIETIESNWRCGRHNLQRIQCRSE
          E.MV.TDPLWKGLSERRGWDQYLF.NRPT..PPNSFYRSLYP.IIQDIETIES..RCGRH.LQRIQ..SE
Retrocopy E*MVYTDPLWKGLSERRGWDQYLFQNRPTSSPPNSFYRSLYPNIIQDIETIEST*RCGRHSLQRIQYHSE

Parental  NSKGVYCLQYDDEKIISGLRDNSIKIWDKTSLECLKVL-TGHTGSVLCLQYDERVIVTGSSDSTVRVWDV
          NSKGVY.LQY.DEKIISGL.DN.IKIWDKTSLECLKVL...HTGSVLCLQ.DERVIVTGSSDSTVRVW.V
Retrocopy NSKGVYGLQYNDEKIISGLQDNYIKIWDKTSLECLKVL<NDHTGSVLCLQ*DERVIVTGSSDSTVRVWEV

Parental  NTGEVLNTLIHHNEAVLHLRFSNGLMVTCS-KDRSIAVWDMASATDITLRRVLVGHRAAVNVVDFDDKYI
          NTGEVLNTLIHHNE.VLHLRFS.GLMVTCS.KDRSIAVWDMASATDITLR.VLVGH.AAVNVVDFD.KYI
Retrocopy NTGEVLNTLIHHNEDVLHLRFSSGLMVTCS<KDRSIAVWDMASATDITLRGVLVGH*AAVNVVDFDEKYI

Parental  VSASGDRTIKVWSTSTCEFVRTLNGHKRGIACLQ
          VSASGDRTIKVWS.STCEF.RTLNGHKR.....Q
Retrocopy VSASGDRTIKVWSMSTCEFARTLNGHKRVLSPVQ

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	0.05 RPM	105.16 RPM
SRP007412_cerebellum	0.12 RPM	93.14 RPM
SRP007412_heart	0.03 RPM	20.17 RPM
SRP007412_kidney	0.20 RPM	40.73 RPM
SRP007412_liver	0.24 RPM	23.90 RPM
SRP007412_testis	0.93 RPM	62.68 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_1576 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1576 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pongo abelii	retro_pabe_1856
Macaca mulatta	retro_mmul_1596

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000007880	1 retrocopy	retro_ggor_1576 ,
Microcebus murinus	ENSMICG00000004512	1 retrocopy	retro_mmur_1457,
Macaca mulatta	ENSMMUG00000016008	1 retrocopy	retro_mmul_1596,
Nomascus leucogenys	ENSNLEG00000000338	1 retrocopy	retro_nleu_1445,