RetrogeneDB ID: retro_ggor_3046

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:91877432..91878090(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCNB1IP1
• Ensembl ID: ENSGGOG00000004586
• Aliases: None
• Description: None

Sequence

>retro_ggor_3046
CTAGATATTGTCCTCACAGAACTCAGTCCATCAGAGGAATACAAAGCTATGGTATTGGTAGGACTGCAACCAGAGATGGT
GTTGAATATTAGCGCCTGAGCACTATACTTCTGGACATATTAGGTATATCAGGAGTCTCTCTATCAAGAATACACTTTCA
GCAAAGCTGAGGGCCATCTGAAACAGATGGAGAAGATATATACTCAGCAAATACGGAGCAAAGATGTAGAATTGACCTTT
ATAAAAGGAGAGATGACCTCCATGAAATAAGTGCTAAAAGAACACAATAAAAATGTTCACTGATATCTGTAAAAAATGTA
TGGAGTACAATCATAAGTATCAAAAACCTCCAAAGCCTCTGTGATAGCCTGAGGCTGTGAAACATTACTGTTGCTAACCA
AGAACATACCTTTGAACCATCCATAATTGCACAGTCTGGTGTTTCTGGCTTTTCATTAGGGAACAACGCCAAGTGTCTTT
TGGACAGTGTACCAGTTTAAAATTTGGGTGATGGAGATGGAGATTTTCAGTTCAGAACTTTTTTTTCTGGATTCTCACAA
AACACCTAAACCAAGCAATAGCTTTTGTCAGTTTTGCCTCTCCAAGTCATGAATTAGAGCAGCAGCAAGTTTCCAGCAGG
GCGTGAAAGTGAAAACAA

Alignment

ORF - retro_ggor_3046 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.62 %
• Parental protein coverage: 78.7 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LDIVRTELSPSEEYKAMVLAGLRPEIVLDISSRALAFWTYQVHQERLYQEYNFSKAEGHLKQMEKIYTQQ
          LDIV.TELSPSEEYKAMVL.GL.PE.VL.IS..AL.FWTY.V.QE.LYQEY.FSKAEGHLKQMEKIYTQQ
Retrocopy LDIVLTELSPSEEYKAMVLVGLQPEMVLNISA*ALYFWTY*VYQESLYQEYTFSKAEGHLKQMEKIYTQQ

Parental  IQSKDVELTSMKGEVTSMKKVLEEYKKK-FSDISEKLMERNRQYQK-LQGLYDSLRLRNITIANHEGTLE
          I.SKDVELT..KGE.TSMK.VL.E..K..F.DI..K.ME.N..YQK.LQ.L.DSLRL.NIT.AN.E.T.E
Retrocopy IRSKDVELTFIKGEMTSMK*VLKEHNKN>FTDICKKCMEYNHKYQK>LQSLCDSLRL*NITVANQEHTFE

Parental  PSMIAQSGVLGFPLGNNSKFPLDNTPVRNQGDGDGDFQFRPFFMG-SPTAPEPSNS-FFSFVSPSRELEQ
          PS.IAQSGV.GF.LGNN.K..LD..PV.N.GDGDGDFQFR....G.S...P.PSNS.F.SF.SPS.ELEQ
Retrocopy PSIIAQSGVSGFSLGNNAKCLLDSVPV*NLGDGDGDFQFRXXXXG>SHKTPKPSNS>FVSFASPSHELEQ

Parental  QQVSSRAFKVKR
          QQVSSRA.K.K.
Retrocopy QQVSSRA*K*KQ

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	9.59 RPM
SRP007412_cerebellum	0.00 RPM	6.50 RPM
SRP007412_heart	0.00 RPM	4.22 RPM
SRP007412_kidney	0.00 RPM	11.04 RPM
SRP007412_liver	0.00 RPM	15.14 RPM
SRP007412_testis	0.00 RPM	16.99 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_3046 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3046 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009967	2 retrocopies	retro_cjac_3244, retro_cjac_4197,
Homo sapiens	ENSG00000100814	1 retrocopy	retro_hsap_4877,
Gorilla gorilla	ENSGGOG00000004586	1 retrocopy	retro_ggor_3046 ,
Microcebus murinus	ENSMICG00000000893	2 retrocopies	retro_mmur_1264, retro_mmur_1551,
Macaca mulatta	ENSMMUG00000016251	2 retrocopies	retro_mmul_2617, retro_mmul_371,
Nomascus leucogenys	ENSNLEG00000010636	1 retrocopy	retro_nleu_2556,
Pan troglodytes	ENSPTRG00000006088	1 retrocopy	retro_ptro_3249,
Rattus norvegicus	ENSRNOG00000026056	1 retrocopy	retro_rnor_842,
Ictidomys tridecemlineatus	ENSSTOG00000004394	1 retrocopy	retro_itri_1590,