RetrogeneDB ID: retro_ggor_1003

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:51549598..51550610(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZDHHC20
• Ensembl ID: ENSGGOG00000000435
• Aliases: None
• Description: None

Sequence

>retro_ggor_1003
ATGGCGCCCTGGACGCTGTCTCGCTGCTGCCACTGTGTCATGGGCTGGGTGCCGGTGCTCTTCATCACCTTCGTGGTCAT
CTGGTCCTACTACGCGTACGTGGTGGAGCTGTGCGTGCTTACTATTTTTGGAAATGAAGAAAATGGAAAGACCGTGTTTA
ACCTTGTGGCTTTCCATCTGTTTTTTTTTAATGTTTGTATGGTCCTATTGGATGACAATTTTCACATCTCCTGCTTCCCC
CTCCAAAGAATTCTACTTGTCCAGTTCTGAAAAGGAACGTTATGGAAAATAATTCAGCCAAGAAAGACAACAAGAAATTT
TGAGAAGAGCAGCAAGAGCTTTACCTATCTGTACCATGTCAGTTTCAAAAACTATCAGATATTGTGAAAAATGTCAGCTG
ATTAAACCTGATCTGGCGCATCACTGCTCAACATGTGACTCATGTATTCTTAAGATGGATCATCACTGTCCTTGGGTGAA
TAACTGTGTGGGATTTTCTAATTACAAATTCTTCCTGCTGTTTTTATTGTATTCCCTATTATATTGCCTTTTCGTGGCTG
CCAACAGTTTTAGAGTACTTTATAAAATTTTGGACGAATGAACTGACAGATACGCGTGCAAAATTCCACGTACTTTTTCT
TTTCTTTGTGTCTGCAATGTTCTTCATCAGCGTCCTCTTACTTTTCAGCTACCACTGCTGGCTAGTTGGAAAAAATAGAA
CAACAATAGAATCATTCTGTGCACCCACATTTTCATATGGACCTGATGGAAATGGTTTCTCTCTTGGATACAATAAAAGT
TGGAGACAAGTCTTTGGTGATGAAAAGAAATATTGGCTACTTTCAATATTTTCAAGCTTGGGTGATGGTTGCAGTTTCCA
ACTCGCCTTGTAGGGATGGGTCCAGAGCAAGCTTCTGTTACAAACCAGAATGAGTATGCCAGAAGTGGCTCAAATCAGCC
TTTTCCTTTCAAACCACTTAGTGAATCCAAAACACTCTTGTTGGACAGTGAA

Alignment

ORF - retro_ggor_1003 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.92 %
• Parental protein coverage: 92.62 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAPWTLWRCCQRVVGWVPVLFITFVVVWSYYAYVVELCVFTIFGNEENGKTVVYLVAFHLFFV-MFVWSY
          MAPWTL.RCC..V.GWVPVLFITFVV.WSYYAYVVELCV.TIFGNEENGKTV..LVAFHL....MFVWSY
Retrocopy MAPWTLSRCCHCVMGWVPVLFITFVVIWSYYAYVVELCVLTIFGNEENGKTVFNLVAFHLXXX>MFVWSY

Parental  WMTIFTSPASPSKEFYLSNSEKERYEKEFSQERQQDILRRAARALPIYTTSASKIIRFCYLCFSIKNGVR
          WMTIFTSPASPSKEFYLS.SEKERY.K.FSQERQQ.ILRRAARALPI.T.S.SK.IR.C..C..IK....
Retrocopy WMTIFTSPASPSKEFYLSSSEKERYGK*FSQERQQEILRRAARALPICTMSVSKTIRYCEKCQLIKPDLA

Parental  HHCAENNKCGMKKNNHTNWKVNNCVGFSNYKFFLLFLLYSLLYCLFVAA-TVLEYFIKFWTNELTDTRAK
          HHC.....C..K...H..W.VNNCVGFSNYKFFLLFLLYSLLYCLFVAA.TVLEYFIKFWTNELTDTRAK
Retrocopy HHCSTCDSCILKMDHHCPW-VNNCVGFSNYKFFLLFLLYSLLYCLFVAA>TVLEYFIKFWTNELTDTRAK

Parental  FHVLFLFFVSAMFFISVLSLFSYHCWLVGKNRTTIESFRAPTFSYGPDGNGFSLGCSKNWRQVFGDEKKY
          FHVLFLFFVSAMFFISVL.LFSYHCWLVGKNRTTIESF.APTFSYGPDGNGFSLG..K.WRQVFGDEKKY
Retrocopy FHVLFLFFVSAMFFISVLLLFSYHCWLVGKNRTTIESFCAPTFSYGPDGNGFSLGYNKSWRQVFGDEKKY

Parental  WLLPIFSSLGDGCS-FPTRLVGMDPEQASVTNQNEYARSSGSNQPFPIKPLSESKNRLLDSE
          WLL.IFSSLGDGCS.FPTRLVGM.PEQASVTNQNEYAR.SGSNQPFP.KPLSESK..LLDSE
Retrocopy WLLSIFSSLGDGCS<FPTRLVGMGPEQASVTNQNEYAR-SGSNQPFPFKPLSESKTLLLDSE

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	6.38 RPM
SRP007412_cerebellum	0.00 RPM	6.11 RPM
SRP007412_heart	0.00 RPM	1.19 RPM
SRP007412_kidney	0.00 RPM	2.82 RPM
SRP007412_liver	0.00 RPM	2.80 RPM
SRP007412_testis	0.00 RPM	31.29 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_1003 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1003 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012155	2 retrocopies	retro_chof_1627, retro_chof_2008,
Cavia porcellus	ENSCPOG00000011489	1 retrocopy	retro_cpor_303,
Equus caballus	ENSECAG00000016465	1 retrocopy	retro_ecab_683,
Homo sapiens	ENSG00000180776	1 retrocopy	retro_hsap_1211,
Gorilla gorilla	ENSGGOG00000000435	2 retrocopies	retro_ggor_1003 , retro_ggor_943,
Gorilla gorilla	ENSGGOG00000013490	1 retrocopy	retro_ggor_2187,
Macaca mulatta	ENSMMUG00000007373	1 retrocopy	retro_mmul_1288,
Pongo abelii	ENSPPYG00000005201	1 retrocopy	retro_pabe_1081,
Pan troglodytes	ENSPTRG00000005695	1 retrocopy	retro_ptro_829,
Tarsius syrichta	ENSTSYG00000003013	1 retrocopy	retro_tsyr_998,