RetrogeneDB ID: retro_ggor_1341

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 17:30907983..30908366(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TCL1B
• Ensembl ID: ENSGGOG00000013671
• Aliases: None
• Description: None

Sequence

>retro_ggor_1341
ATGGCCTCCAAAGCTTCTCCGCATCTCAGGGCACCCCCCCAACTGTCTGGATCTGGAGGCCTGGCATCTATGAGGATGAC
AAGGGGAGGACCTGGGTGACTGTGGTTGTGCGCCTCAGTCCCCTGCACAGAGAAAGGGCCGGGTGCTCAAGCTCCCAGGG
CAGCACATATGAACCTAGCATCACAGTGCACATGTGGCAGATGCCAGTGCACACCCGGGAGCCACTGTCCCCCAGCCAGC
TGCCCTTCTCCCACCTGCTCCCCGTGTGGCAGCTCTACCCCAAGAGGAGGTACCAAGCAGCAAATTCCAGTTTCTGGGAA
ATAGTGGACCAGATCGTCTCCATGGAGCAGCTGGTCCTAACATATTGGCCGGCAAGGAATAAC

Alignment

ORF - retro_ggor_1341 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.94 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MASKASVRLGVPPG-RLWIQRPGIYEDEEGRTWVTVVVRFNPSHREWA--RASQGSRYEPSITVHLWQMA
          MASKAS..L..PP....WI.RPGIYED..GRTWVTVVVR..P.HRE.A....SQGS.YEPSITVH.WQM.
Retrocopy MASKASPHLRAPPQ<TVWIWRPGIYEDDKGRTWVTVVVRLSPLHRERAGCSSSQGSTYEPSITVHMWQMP

Parental  VHTRELLSSGQMPFSQLPAMWQLYPGRKYRAADSSFWEIADHGQIDSMEQLVLTYQPERKD
          VHTRE.LS..Q.PFS.L...WQLYP.R.Y.AA.SSFWEI.D..QI.SMEQLVLTY.P.R..
Retrocopy VHTREPLSPSQLPFSHLLPVWQLYPKRRYQAANSSFWEIVD--QIVSMEQLVLTYWPARNN

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	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.06 RPM	0.03 RPM
SRP007412_kidney	0.00 RPM	0.94 RPM
SRP007412_liver	0.03 RPM	0.05 RPM
SRP007412_testis	0.00 RPM	1.04 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_1341 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1341 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000213231	1 retrocopy	retro_hsap_3183,
Gorilla gorilla	ENSGGOG00000013671	1 retrocopy	retro_ggor_1341 ,
Mus musculus	ENSMUSG00000060863	2 retrocopies	retro_mmus_1150, retro_mmus_1605,
Nomascus leucogenys	ENSNLEG00000000495	1 retrocopy	retro_nleu_1660,
Pongo abelii	ENSPPYG00000006118	1 retrocopy	retro_pabe_2642,
Pan troglodytes	ENSPTRG00000006694	1 retrocopy	retro_ptro_2261,