RetrogeneDB ID: retro_ggor_2627

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:125972024..125972646(-)
• Located in intron of: ENSGGOG00000009614

Retrocopy information

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

Parental gene information

• Parental gene symbol: CD2BP2
• Ensembl ID: ENSGGOG00000014271
• Aliases: None
• Description: None

Sequence

>retro_ggor_2627
CGCCAGGCCTCAGACTTGGAAGAGGAGGACAGCTTGGGCCAGACCCCAGTGAGTGCCCAAGCCTTCTTGGAGGGACTTTT
GGAGCTCCTATTGCCTAGAGAGACAGTGGCTAGGGCACGGAGGCGTCTGGGGGCCCGAGGAGGAGGCAAAGGGAGCAGCA
AGGGGCCTGGGTGACCCAGTTCCCCGCAGTGCCCAGACCGGCTCTCCGAATTGGCCGACCAGATGGTGGCCCAGGGAAAC
CTTGGCATGTACCAGGAAACGAGGGAACAGTTGGCCATGCGGCTGAAGGGTTTGGGGTGCCAGGCCCTAGGGACCCCACA
ATCCCACACCCCCACACTCCCTAGACATGTTCGCTGAGGAAGTGGCGGAGGTGGAACTACAGACCCCAACCCCTACCCAG
AGAGGAGAAGCAGAGTTGCCAGGAGATGGTCTGGTGGATGTGATGTGGGAATATAAGTGGGAGAACCCGGGGGATGCCGA
GCTGCATGGGCCCTTCACCAGCGACCAGATGCAGACCTGGGTGAGCGAAGGCTACTTTCCTGATGGTGTTTATTGCCGGA
AGCTGGACCCCCTTCGTGGCCAGTTCTACAACTCCAAACGCATTGACTTTGACCTCTACACC

Alignment

ORF - retro_ggor_2627 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.17 %
• Parental protein coverage: 60.41 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RQASDSEEEDGLGQTPMSAQALLEGLLELLLPRETVAGALRRLGARGGGKGS-KGPGRPSSPQRLDRLSG
          RQASD.EEED.LGQTP.SAQA.LEGLLELLLPRETVA.A.RRLGARGGGKGS.KGPG.PSSPQ..DRLS.
Retrocopy RQASDLEEEDSLGQTPVSAQAFLEGLLELLLPRETVARARRRLGARGGGKGSSKGPG*PSSPQCPDRLSE

Parental  LADQMVARGNLGVYQETRERLAMRLKGLGCQTL-GPHNPTPPPSLDMFAEEVAEEELETPTPTQRGEAES
          LADQMVA.GNLG.YQETRE.LAMRLKGLGCQ.L.G..........DMFAEEVAE.EL.TPTPTQRGEAE.
Retrocopy LADQMVAQGNLGMYQETREQLAMRLKGLGCQAL>GXXXXXXXXXXDMFAEEVAEVELQTPTPTQRGEAEL

Parental  RGDGLVDVMWEYKWENTGDAELYGPFTSAQMQTWVSEGYFPDGVYCRKLDPPGGQFYNSKRIDFDLYT
          .GDGLVDVMWEYKWEN.GDAEL.GPFTS.QMQTWVSEGYFPDGVYCRKLDP..GQFYNSKRIDFDLYT
Retrocopy PGDGLVDVMWEYKWENPGDAELHGPFTSDQMQTWVSEGYFPDGVYCRKLDPLRGQFYNSKRIDFDLYT

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	76.63 RPM
SRP007412_cerebellum	0.00 RPM	65.01 RPM
SRP007412_heart	0.03 RPM	32.55 RPM
SRP007412_kidney	0.00 RPM	66.44 RPM
SRP007412_liver	0.18 RPM	26.17 RPM
SRP007412_testis	0.00 RPM	38.12 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_2627 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2627 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3900
Pan troglodytes	retro_ptro_2653
Pongo abelii	retro_pabe_3179
Macaca mulatta	retro_mmul_1735

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000169217	1 retrocopy	retro_hsap_3900,
Gorilla gorilla	ENSGGOG00000014271	1 retrocopy	retro_ggor_2627 ,
Macaca mulatta	ENSMMUG00000021844	1 retrocopy	retro_mmul_1735,
Nomascus leucogenys	ENSNLEG00000015767	1 retrocopy	retro_nleu_1139,
Pongo abelii	ENSPPYG00000007267	1 retrocopy	retro_pabe_3179,
Pan troglodytes	ENSPTRG00000007995	1 retrocopy	retro_ptro_2653,