RetrogeneDB ID: retro_ggor_96

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:68977352..68978852(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000023282
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CDC20
• Ensembl ID: ENSGGOG00000010419
• Aliases: None
• Description: None

Sequence

>retro_ggor_96
CTGGCACAATTCGCGTTCGAGAGTGACCTGCACTCGCTGCTTCAACTGGATGCACCCATCCCCAATGCACCCCCTGCTCG
CTGGCAGCGCAAAGCCAAGAAAGCCACAGGCCCGGCCCCCTCACCCATGCGGGCCGCCAACCGATCCCACAGCGCCGGCA
GGACTCTGGGCCGAACTCCTGGCAAATCCAGTTCCAAGGTTCAGACCACTCCTAGCAAACCTGGCGGTGACCGCTATATC
CCCCATTGCAGTGCTGCCCAGATGGAGGTGGCCAGCTTCCTCCTGAGCAAGGAGAACCAGCCTGAAAACAGCCAGACGCC
TACCAAGACGGAACATCAGAAAGCCTGGACTTTGAACTTAAACGGTTTTGATGTAGAGGAAGCCAAGATCCTTCGGCTCA
GTGGAAAACCACAAAATGCTCCAGAGGGTTACCAGAACAGACTGAAAGTACTCTACAGCCAAAAGGCCACTCCTGGCTCC
AGCCGGAAGACCTACCATTACATTCCTTCCCTGCCAGACCATAACCTGGATGCCCCTGAAATCCGAAATGACTACTACCT
GAACCTTGTGGATTGGAGCTCTGGGAATGTATTGGCCGTGGCGCTGGACAACAGTGTGTACCTGTGGAGCGCAAGCTCTG
GTGACATCCTGCAGCTTTTGCAAATGGAGCAGACTGGGAAATATGTATCCTCTGCGGCCTGGATCAAAGAGGGCAAATAC
TTGGCTGTGGGCACCAGCAGTGCTGAGGTGCAGCTATGGGATGTGCAGCAGCAGCAGAAACGGCTTCGAAATATGACCAG
TCACTCTGCCCGAGTGGGCTCCCTAAGCTGGAACAGCTATATCCTATCCAGTGGTTCACATTCTGGCCACATCCACCACC
ATGATGTTCGGGTAGCAGAACACCACGTGGCCACACTGAGTGGCCACAGCCAGGAAGTGTGTGGGCTGCGCTGGGTCCCA
GATGGACGACATTTGGCCAGTGGTGGCAATGATATCTTGGTCAAAGTGTGGCCTAGTGCTCTTGGAGAGGGTGGCTGGGT
TCCTCTGCAGACATTCACCCTTCAAGGGGCTGTCAAGGCCGTAGCATGGTGTCCCTGGCAGTCCAATGTCCCGGCAACAG
GAGGGGGCACCAGTGATCGACACATTTGCATCTGGAACGTGTGCTCTGGGGCCTGTCTGAGTGCCGTGGATGCCCTTTCC
CAGGTGTGCTCCATCCTCTGGTCTCCCCACTACAAGGAGCTTATCTCAGGCCATGGCTTTGCACAGAACCAGCTGGTTAT
TTGGAAGTACCCAACCATGGCCAAGGTGGCTGAACTCAAAGGTCACACCTCCCGGGTCCTGAGTCTGACCATGAGCCCAG
ATGGGGCCACAGTGGCATCTGCAGCAGCAGATGAGACCCCGAGGCTATGGCACTGTTTTGAGTTGGACCCTGCGTGGCGG
CGGGAGTGGGAGAAGGCCAGTGCAGCCAAAAGCAGCCTCATCCACCAAGGCATCCACTGA

Alignment

ORF - retro_ggor_96 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.79 %
• Parental protein coverage: 99.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAQFAFESDLHSLLQLDAPIPNAPPARWQRKAKEAAGPAPSPMRAANRSHSAGRTPGRTPGKSSSKVQTT
          .AQFAFESDLHSLLQLDAPIPNAPPARWQRKAK.A.GPAPSPMRAANRSHSAGRT.GRTPGKSSSKVQTT
Retrocopy LAQFAFESDLHSLLQLDAPIPNAPPARWQRKAKKATGPAPSPMRAANRSHSAGRTLGRTPGKSSSKVQTT

Parental  PSKPGGDRYIPHRSAAQMEVASFLLSKENQPENSQTPTKKEHQKAWALNLNGFDVEEAKILRLSGKPQNA
          PSKPGGDRYIPH.SAAQMEVASFLLSKENQPENSQTPTK.EHQKAW.LNLNGFDVEEAKILRLSGKPQNA
Retrocopy PSKPGGDRYIPHCSAAQMEVASFLLSKENQPENSQTPTKTEHQKAWTLNLNGFDVEEAKILRLSGKPQNA

Parental  PEGYQNRLKVLYSQKATPGSSRKTCRYIPSLPDRILDAPEIRNDYYLNLVDWSSGNVLAVALDNSVYLWS
          PEGYQNRLKVLYSQKATPGSSRKT..YIPSLPD..LDAPEIRNDYYLNLVDWSSGNVLAVALDNSVYLWS
Retrocopy PEGYQNRLKVLYSQKATPGSSRKTYHYIPSLPDHNLDAPEIRNDYYLNLVDWSSGNVLAVALDNSVYLWS

Parental  ASSGDILQLLQMEQPGEYISSVAWIKEGNYLAVGTSSAEVQLWDV-QQQKRLRNMTSHSARVGSLSWNSY
          ASSGDILQLLQMEQ.G.Y.SS.AWIKEG.YLAVGTSSAEVQLWDV.QQQKRLRNMTSHSARVGSLSWNSY
Retrocopy ASSGDILQLLQMEQTGKYVSSAAWIKEGKYLAVGTSSAEVQLWDVQQQQKRLRNMTSHSARVGSLSWNSY

Parental  ILSSGSRSGHIHHHDVRVAEHHVATLSGHSQEVCGLRWAPDGRHLASGGNDNLVNVWPSAPGEGGWVPLQ
          ILSSGS.SGHIHHHDVRVAEHHVATLSGHSQEVCGLRW.PDGRHLASGGND.LV.VWPSA.GEGGWVPLQ
Retrocopy ILSSGSHSGHIHHHDVRVAEHHVATLSGHSQEVCGLRWVPDGRHLASGGNDILVKVWPSALGEGGWVPLQ

Parental  TFTQHQGAVKAVAWCPWQSNVLATGGGTSDRHIRIWNVCSGACLSAVDAHSQVCSILWSPHYKELISGHG
          TFT..QGAVKAVAWCPWQSNV.ATGGGTSDRHI.IWNVCSGACLSAVDA.SQVCSILWSPHYKELISGHG
Retrocopy TFTL-QGAVKAVAWCPWQSNVPATGGGTSDRHICIWNVCSGACLSAVDALSQVCSILWSPHYKELISGHG

Parental  FAQNQLVIWKYPTMAKVAELKGHTSRVLSLTMSPDGATVASAAADETLRLWRCFELDPARRREREKASAA
          FAQNQLVIWKYPTMAKVAELKGHTSRVLSLTMSPDGATVASAAADET.RLW.CFELDPA.RRE.EKASAA
Retrocopy FAQNQLVIWKYPTMAKVAELKGHTSRVLSLTMSPDGATVASAAADETPRLWHCFELDPAWRREWEKASAA

Parental  KSSLIHQGI
          KSSLIHQGI
Retrocopy KSSLIHQGI

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	1.77 RPM	0.38 RPM
SRP007412_cerebellum	0.79 RPM	0.32 RPM
SRP007412_heart	0.06 RPM	0.38 RPM
SRP007412_kidney	0.04 RPM	0.82 RPM
SRP007412_liver	0.00 RPM	0.42 RPM
SRP007412_testis	0.00 RPM	82.57 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_96 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_96 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4187
Pan troglodytes	retro_ptro_2843
Pongo abelii	retro_pabe_3428

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006680	2 retrocopies	retro_chof_2172, retro_chof_2286,
Callithrix jacchus	ENSCJAG00000003414	1 retrocopy	retro_cjac_1608,
Homo sapiens	ENSG00000117399	1 retrocopy	retro_hsap_4187,
Gorilla gorilla	ENSGGOG00000010419	1 retrocopy	retro_ggor_96 ,
Mus musculus	ENSMUSG00000006398	1 retrocopy	retro_mmus_1536,
Nomascus leucogenys	ENSNLEG00000013419	1 retrocopy	retro_nleu_2847,
Pongo abelii	ENSPPYG00000001448	1 retrocopy	retro_pabe_3428,
Pan troglodytes	ENSPTRG00000000634	1 retrocopy	retro_ptro_2843,
Tarsius syrichta	ENSTSYG00000012703	3 retrocopies	retro_tsyr_1560, retro_tsyr_442, retro_tsyr_938,
Tursiops truncatus	ENSTTRG00000010813	1 retrocopy	retro_ttru_1309,