RetrogeneDB ID: retro_ggor_2879

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:103997725..103998510(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP6V1B2
• Ensembl ID: ENSGGOG00000003888
• Aliases: None
• Description: None

Sequence

>retro_ggor_2879
ACTGGGGATATTCTCCAAACATCAGTGTCTGAGGATATGCTTTGTTGGGTATTAGTTGGATTGGGAAAAACCCATTGACA
GAGGTCCTCTTGTACTGGCTGAAGATTTCTTTGATATCATGGGATGGCCAACCAATCCTCAACATCAAATCTACCCAGAG
GACATGATTCGGATCAGCATTTCAGCCATAGTTGGTATGAACAGTATTGCCGGGGCAGAAAATTTTTATCTTCTCTGCTG
CTGGGTTACTACACAAAGATTGCAGCTCAAATCTGCCACCAGACTGGTTTGCTAAATGAATCCAAAGACGTAGACTACAC
TGAGGAAAATTTTCCAATTGTATTTGCTGCTAAGGATGTAAACATGGAAACTGCCCGGTTCTTCAAATCTGGTGTTGAAG
AAAATGGCTCAATGGACAACATCTGCCTGTTTTTGAACTTGGCTAATGACCCAACTATTGGGTGGATTGTCATCCCTCAC
CCGGTTCTAACCACAGCCGAATTTCTGGCATACCAATATGAGAAACATGTATTGGTTATCCTAACAGATATGAGTTCATC
TACTGAAGCACTTCAAGAGGTTTCTACAGCCAGAGAAGAGGTTCCTGGTTGACGAGGCTTCACAGGTTACACTTATACAG
ACTTAGCCACTATATATGAACATGCCGGTCAAGGAGAAGGTAGAAATGGCTTGATTACTCAAATTCCTACTCTTACCATG
CCTGCCAATGATATCATTCACCCATCTCTGAACGGACTGGGACAGATCTATGTGGACAGCTACAC

Alignment

ORF - retro_ggor_2879 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.41 %
• Parental protein coverage: 51.66 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TGDILRTPVSEDMLGRVFNGSGK-PIDRGPVVLAEDFLDIMGQPINPQCRIYPEEMIQTGISAIDGMNSI
          TGDIL.T.VSEDML..V..G.GK.PIDRGP.VLAEDF.DIMG.P.NPQ..IYPE.MI...ISAI.GMNSI
Retrocopy TGDILQTSVSEDMLCWVLVGLGK>PIDRGPLVLAEDFFDIMGWPTNPQHQIYPEDMIRISISAIVGMNSI

Parental  A-RGQKIPIFSAAGLPHNEIAAQICRQAGLVKKSKDVVDYSEENFAIVFAAMGVNMETARFFKSDFEENG
          A.RG.K.......G.....IAAQIC.Q.GL...SKDV.DY.EENF.IVFAA..VNMETARFFKS..EENG
Retrocopy A<RGRKFLSSLLLGY-YTKIAAQICHQTGLLNESKDV-DYTEENFPIVFAAKDVNMETARFFKSGVEENG

Parental  SMDNVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRG
          SMDN.CLFLNLANDPTI..I..P...LTTAEFLAYQ.EKHVLVILTDMSS..EAL.EVS.AREEVPG.RG
Retrocopy SMDNICLFLNLANDPTIGWIVIPHPVLTTAEFLAYQYEKHVLVILTDMSSSTEALQEVSTAREEVPG*RG

Parental  FPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDITH-PIPDLTGYITEGQIY
          F.GY.YTDLATIYE.AG..EGRNG.ITQIP.LTMP..DI.H.PI...TG....GQ..
Retrocopy FTGYTYTDLATIYEHAGQGEGRNGLITQIPTLTMPANDIIH<PISERTGTDLCGQLH

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	475.99 RPM
SRP007412_cerebellum	0.00 RPM	168.23 RPM
SRP007412_heart	0.00 RPM	19.20 RPM
SRP007412_kidney	0.00 RPM	211.11 RPM
SRP007412_liver	0.00 RPM	31.68 RPM
SRP007412_testis	0.00 RPM	217.46 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_2879 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2879 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4308
Pan troglodytes	retro_ptro_2917

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003668	1 retrocopy	retro_chof_2287,
Homo sapiens	ENSG00000147416	1 retrocopy	retro_hsap_4308,
Gorilla gorilla	ENSGGOG00000003888	1 retrocopy	retro_ggor_2879 ,
Microcebus murinus	ENSMICG00000001791	1 retrocopy	retro_mmur_854,
Nomascus leucogenys	ENSNLEG00000000794	1 retrocopy	retro_nleu_1460,
Pan troglodytes	ENSPTRG00000020040	1 retrocopy	retro_ptro_2917,
Tarsius syrichta	ENSTSYG00000010477	1 retrocopy	retro_tsyr_2096,
Tursiops truncatus	ENSTTRG00000013650	1 retrocopy	retro_ttru_1845,