RetrogeneDB ID: retro_ggor_2614

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:106709585..106710240(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BUB3
• Ensembl ID: ENSGGOG00000023971
• Aliases: None
• Description: None

Sequence

>retro_ggor_2614
ACACGTGCTCAGGTAATAGCGCTTGCTCTCAGGTCCATGCGCTCAGGTACCAGCACACTGGCACCATCCTGGACTGAGCC
TTCTACGATCCAGCACAGGCCTGGAGAGGACTAGATCATCAATTGAAAATGCATGATTTGACCACTGATCAAGAAAATCT
TGTTGGGACCCATGATGCCCCCATCAGATGTATTGAATACTGTCCGGAAGTGAACGTGATGGTTACTGGAAGTTGGGATC
AGACAGTTAAATTGTGGGATCCCAGAAATCCTTGTAATGCTAGGACCTTCTCTCAGTCTGAAAAGGTAGATACCTTCTCA
GTGTCTGGAGACCTGCTGATTGTGAGAACAGCGGGCTGCAGAGTGTTGGTGTGGGGCTTATGGAACATGGATTACGTGCA
GCAGAGCAGGGAGTCCAGCCTGAAATACCAGACTCGCTGCATATAAGCGTTTCCAAACAAGCAGGGTTATGTATTAAGCT
CTATAGAAGGTGGAGTGGCAGTTGAATACTTGGCCCAAGCCCTGAGGTACAGAAGAAATATGCCTTCAAATGTCACAGAC
TAAAAGAAAATAATATTGAGCAGGTTTACCCAGTCAATGCCATTTCTTTCCAGAATATCCATAATACATTTGCCATAGGT
GGTTCTGATGGCTTT

Alignment

ORF - retro_ggor_2614 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.61 %
• Parental protein coverage: 67.38 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TSVRLYDVPANSMR-LKYQHTGAVLDCAFYDPTHAWSGGLDHQLKMHDLNTDQENLVGTHDAPIRCVEYC
          T..........SMR.L.YQHTG..LD.AFYDP..AW.G.LDHQLKMHDL.TDQENLVGTHDAPIRC.EYC
Retrocopy TRAQVIALALRSMR<LRYQHTGTILD*AFYDPAQAWRG-LDHQLKMHDLTTDQENLVGTHDAPIRCIEYC

Parental  PEVNVMVTGSWDQTVKLWDPRTPCNAGTFSQPEKVYTLSVSGDRLIVGTAGRRVLVWDLRNMGYVQQRRE
          PEVNVMVTGSWDQTVKLWDPR.PCNA.TFSQ.EKV.T.SVSGD.LIV.TAG.RVLVW.L.NM.YVQQ.RE
Retrocopy PEVNVMVTGSWDQTVKLWDPRNPCNARTFSQSEKVDTFSVSGDLLIVRTAGCRVLVWGLWNMDYVQQSRE

Parental  SSLKYQTRCIRAFPNKQGYVLSSIEGRVAVEY-LDPSPEVQKKKYAFKCHRLKENNIEQIYPVNAISFHN
          SSLKYQTRCI.AFPNKQGYVLSSIEG.VAVEY.L.PSPEVQ.KKYAFKCHRLKENNIEQ.YPVNAISF.N
Retrocopy SSLKYQTRCI*AFPNKQGYVLSSIEGGVAVEY<LGPSPEVQ-KKYAFKCHRLKENNIEQVYPVNAISFQN

Parental  IHNTFATGGSDGF
          IHNTFA.GGSDGF
Retrocopy IHNTFAIGGSDGF

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	33.14 RPM
SRP007412_cerebellum	0.00 RPM	37.23 RPM
SRP007412_heart	0.00 RPM	8.19 RPM
SRP007412_kidney	0.00 RPM	31.03 RPM
SRP007412_liver	0.00 RPM	28.96 RPM
SRP007412_testis	0.00 RPM	85.47 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_2614 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2614 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012700	1 retrocopy	retro_cfam_399,
Callithrix jacchus	ENSCJAG00000001066	1 retrocopy	retro_cjac_3085,
Cavia porcellus	ENSCPOG00000011957	1 retrocopy	retro_cpor_997,
Homo sapiens	ENSG00000154473	1 retrocopy	retro_hsap_3887,
Gorilla gorilla	ENSGGOG00000023971	1 retrocopy	retro_ggor_2614 ,
Myotis lucifugus	ENSMLUG00000017732	1 retrocopy	retro_mluc_627,
Macaca mulatta	ENSMMUG00000003092	1 retrocopy	retro_mmul_1729,
Nomascus leucogenys	ENSNLEG00000027075	1 retrocopy	retro_nleu_1887,
Procavia capensis	ENSPCAG00000007736	1 retrocopy	retro_pcap_412,
Pongo abelii	ENSPPYG00000002731	1 retrocopy	retro_pabe_3168,
Ictidomys tridecemlineatus	ENSSTOG00000021785	1 retrocopy	retro_itri_1095,
Tarsius syrichta	ENSTSYG00000013444	2 retrocopies	retro_tsyr_1652, retro_tsyr_732,
Tursiops truncatus	ENSTTRG00000016194	1 retrocopy	retro_ttru_1136,