RetrogeneDB ID: retro_ggor_2651

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:30396913..30398245(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TUBB
• Ensembl ID: ENSGGOG00000022655
• Aliases: None
• Description: None

Sequence

>retro_ggor_2651
ATGAGGGAAATCGTGCACATCCAGGCTGGTCAGTGTGGCAACCAGATCGGTGCCAAGTTCTGGGAGGTGATCAGTGATGA
ACATGGCATCGACCCCACTGGCACCTACCACGGGGACAGCGACCTGCAGCTGGACCGCATCTCCGTGTACTACAGTGAAG
CCACAGGTGGCAAATATGTTCCTCGTGCCATCCTGGTGGATCTAGAACCTGGGACCATGGACTCTGTTCGCTCAGGTCCT
TTTGGCCAGATCTTTAGACCAGACAACTTTGTATTTGGTCAGTCTGGGGCAGGTAACAACTGGGCCAAAGGCCACTACAC
AGAGGGCGCCGAGCTGGTTGATTCCGTCCTGGATGTGGTATGGAAGGAGGCAGAGAGCTGTGACTGCCTGCAGGGCTTCC
AGCTGACCCACTCACTGGGTGGGGGCACAGGCTCTGGAATGGGCACTCTCCTTATCAGCAAGATCCGAGAAGAATACCCT
GATCGCATCATGAATACCTTCAGTGTGGTGCCTTCACCCAAAGTGTCTGACACAGTGATCGAGCCCTACAATTCTACCCT
CTCTGTCCATCGGTTGGTAGAGAACACTGATGAGACCTATTGCATTGACAACGAGGCCCTCTATGATATCTGCTTCCGCA
CTCTGAGGCTGACCACACCAACCTATGGGGATCTGAACCACCTCGTCTCAGACACCATGAGTGGTGTCACCACCTGCCTC
CGCTTCCCTGGCCAGCTCAATGCTGACCTCCGCAAGTTGGCAGTTAACATGGTCCCCTTCCCACGTCTCCATTTCTTTAT
GCCTGGCTTTGCCCCTCTCACCAGCCATGGAAGCCAGCAGTATTGAGCTCTCACAGTGCCGGAACTCACCCAGCAGGTCT
TCGATGCCAAGAGCATGATGGCTGCCTGTGACCCCCGCCACGGCCGATACCTCACCGTGGCTGCTGACTTCCGTGGTCGG
ATGTCCATGAAGGAGGTCGATGAGCAGATGTTTAACGTGCAGAACAAGAACAGCAGCTACTTTGTGGAATGGATCCCCAA
CAATATCAAGACAGCTGTCTGTGACATCCCACCTCGTGGCCTCAAGATGGCAGTCACCTTCATTGGCAGTAGCACGGCCA
TCCAGGAGCTCTTCAAGCACATCTCGGAGCAGTTCACTGCCATGTTCCGCCGGAAGGCCTTCCTCCACTGGTACACAGGC
GAGGGCAGGGACGAGATGGAGTTCACCGAGGCTGACAGCAACATGAACGACCTCGTCTCTGAGTATCAGCAGTACCAGGA
TGCCACCGCAGAAGAGGCGGAGGATTTCGGTGAGGAGGCCAAAGAGGAGGCC

Alignment

ORF - retro_ggor_2651 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.72 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGTYHGDSDLQLDRISVYYNEATGGKYVPRAILVDLEP
          MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGTYHGDSDLQLDRISVYY.EATGGKYVPRAILVDLEP
Retrocopy MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGTYHGDSDLQLDRISVYYSEATGGKYVPRAILVDLEP

Parental  GTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVRKEAESCDCLQGFQLTHSLG
          GTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVV.KEAESCDCLQGFQLTHSLG
Retrocopy GTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVWKEAESCDCLQGFQLTHSLG

Parental  GGTGSGMGTLLISKIREEYPDRIMNTFSVVPSPKVSDTVVEPYNATLSVHQLVENTDETYCIDNEALYDI
          GGTGSGMGTLLISKIREEYPDRIMNTFSVVPSPKVSDTV.EPYN.TLSVH.LVENTDETYCIDNEALYDI
Retrocopy GGTGSGMGTLLISKIREEYPDRIMNTFSVVPSPKVSDTVIEPYNSTLSVHRLVENTDETYCIDNEALYDI

Parental  CFRTLKLTTPTYGDLNHLVSATMSGVTTCLRFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTSRGSQQ
          CFRTL.LTTPTYGDLNHLVS.TMSGVTTCLRFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTS.GSQQ
Retrocopy CFRTLRLTTPTYGDLNHLVSDTMSGVTTCLRFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTSHGSQQ

Parental  YRALTVPELTQQVFDAKNMMAACDPRHGRYLTVAAVFRGRMSMKEVDEQMLNVQNKNSSYFVEWIPNNVK
          Y.ALTVPELTQQVFDAK.MMAACDPRHGRYLTVAA.FRGRMSMKEVDEQM.NVQNKNSSYFVEWIPNN.K
Retrocopy Y*ALTVPELTQQVFDAKSMMAACDPRHGRYLTVAADFRGRMSMKEVDEQMFNVQNKNSSYFVEWIPNNIK

Parental  TAVCDIPPRGLKMAVTFIGNSTAIQELFKRISEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVS
          TAVCDIPPRGLKMAVTFIG.STAIQELFK.ISEQFTAMFRRKAFLHWYTGEG.DEMEFTEA.SNMNDLVS
Retrocopy TAVCDIPPRGLKMAVTFIGSSTAIQELFKHISEQFTAMFRRKAFLHWYTGEGRDEMEFTEADSNMNDLVS

Parental  EYQQYQDATAEEEEDFGEEAEEEA
          EYQQYQDATAEE.EDFGEEA.EEA
Retrocopy EYQQYQDATAEEAEDFGEEAKEEA

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	0.34 RPM	302.16 RPM
SRP007412_cerebellum	0.24 RPM	211.45 RPM
SRP007412_heart	0.16 RPM	106.69 RPM
SRP007412_kidney	0.04 RPM	102.02 RPM
SRP007412_liver	0.13 RPM	176.52 RPM
SRP007412_testis	0.41 RPM	156.23 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_2651 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2651 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3944
Pan troglodytes	retro_ptro_2677
Pongo abelii	retro_pabe_3250

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000002192	1 retrocopy	retro_ggor_2364,
Gorilla gorilla	ENSGGOG00000022655	4 retrocopies	retro_ggor_2388, retro_ggor_244, retro_ggor_2519, retro_ggor_2651 ,
Macropus eugenii	ENSMEUG00000015992	1 retrocopy	retro_meug_978,
Macaca mulatta	ENSMMUG00000023684	2 retrocopies	retro_mmul_2501, retro_mmul_375,
Nomascus leucogenys	ENSNLEG00000005348	1 retrocopy	retro_nleu_498,
Otolemur garnettii	ENSOGAG00000032213	1 retrocopy	retro_ogar_2391,
Ochotona princeps	ENSOPRG00000014770	4 retrocopies	retro_opri_1106, retro_opri_237, retro_opri_46, retro_opri_656,
Pan troglodytes	ENSPTRG00000017939	3 retrocopies	retro_ptro_151, retro_ptro_2527, retro_ptro_2677,