RetrogeneDB ID: retro_ggor_1997

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:173462664..173463428(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BZW1
• Ensembl ID: ENSGGOG00000016296
• Aliases: None
• Description: None

Sequence

>retro_ggor_1997
CTAATGGCATCCATTCTTAATAGCCTTTATAATGAGAATTTGGTTAAAGAAGGGGTTTCAACAGCTTTTGCTGTAAAGCT
CTTTAAATCATGAATAAATGAAAAAGATATCAATGCAGTAACTGCAAGGAAAGTCAGCATGGATAACAGCCTGATGGAAC
TTTTTCCTGCCAATAAGCAAAGCATTCAACACTTCACAAAGTATTTTACTGAGGCAGGCCTGAAAGAGCTTTCAGAATAT
GTTCGGAATCAGCAAACCATCAGAGCTTGCAAGGAGCTCCAGAAAGAACTTCAAGAACAGATGTCCCGTGGGGATCCATT
TAAGGATATAATTTTATATGTCAAGGAGGAGATGAAAAAAAACAACATCCCGGAACCAGCTGTCATCGAAATAGTCTGGT
CAAATGTAATGAGCTCTGTGGAATGGAACAAAAGAGAGGAGCTTGTAGCAGAGCAAGCCATCAAACACTTGAAGCAACAC
AGCCCTCTACTTGCTGCCTTTACTACTCAAGGTCAGTCTGAGCTGACTCTGTTACTGAAGATTCAGGAGTATTGTTATGA
CAACATTCATTTCATGAAAGCCTTCCAGAAAATAGTGGTGCTTTTTATAAAGCTGTAGTCCTGAGCAAAGAGCCCATTTT
GAAGTGGTATAAAGGTACACATGTTGCAAAGGGGAAGAGCGTTTTCCTTGAGCAAATGAAAAAGTTTGGAGAGTGGCTCA
AAAATGCTGAAGAAGAATCTGAATCTGAAGCTGAAGAAGGTGAC

Alignment

ORF - retro_ggor_1997 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.92 %
• Parental protein coverage: 56.98 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LNASILNSLYNENLVKEGVSAAFAVKLFKSWINEKDINAVAASLRKVSMDNRLMELFPANKQSVEHFTKY
          L.ASILNSLYNENLVKEGVS.AFAVKLFKS.INEKDINAV.A..RKVSMDN.LMELFPANKQS..HFTKY
Retrocopy LMASILNSLYNENLVKEGVSTAFAVKLFKS*INEKDINAVTA--RKVSMDNSLMELFPANKQSIQHFTKY

Parental  FTEAGLKELSEYVRNQQTIGARKELQKELQEQMSRGDPFKDIILYVKEEMKKNNIPEPVVIGIVWSSVMS
          FTEAGLKELSEYVRNQQTI.A.KELQKELQEQMSRGDPFKDIILYVKEEM...NIPEP.VI.IVWS.VMS
Retrocopy FTEAGLKELSEYVRNQQTIRACKELQKELQEQMSRGDPFKDIILYVKEEMXXXNIPEPAVIEIVWSNVMS

Parental  TVEWNKKEELVAEQAIKHLKQYSPLLAAFTTQGQSELTLLLKIQEYCYDNIHFMKAFQKIVVLF-YKAEV
          .VEWNK.EELVAEQAIKHLKQ.SPLLAAFTTQGQSELTLLLKIQEYCYDNIHFMKAFQKIVVLF.YKA.V
Retrocopy SVEWNKREELVAEQAIKHLKQHSPLLAAFTTQGQSELTLLLKIQEYCYDNIHFMKAFQKIVVLF<YKAVV

Parental  LSEEPILKWYKDAHVAKGKSVFLEQMKKFVEWLKNAEEESESEAEEGD
          LS.EPILKWYK..HVAKGKSVFLEQMKKF.EWLKNAEEESESEAEEGD
Retrocopy LSKEPILKWYKGTHVAKGKSVFLEQMKKFGEWLKNAEEESESEAEEGD

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	33.62 RPM
SRP007412_cerebellum	0.00 RPM	23.95 RPM
SRP007412_heart	0.00 RPM	7.47 RPM
SRP007412_kidney	0.04 RPM	67.18 RPM
SRP007412_liver	0.05 RPM	38.30 RPM
SRP007412_testis	0.31 RPM	294.43 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_1997 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1997 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2881
Pan troglodytes	retro_ptro_1949
Macaca mulatta	retro_mmul_1457

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000011878	1 retrocopy	retro_cfam_2150,
Choloepus hoffmanni	ENSCHOG00000003543	8 retrocopies	retro_chof_1519, retro_chof_2060, retro_chof_2092, retro_chof_2451, retro_chof_2517, retro_chof_689, retro_chof_726, retro_chof_838,
Cavia porcellus	ENSCPOG00000010449	1 retrocopy	retro_cpor_331,
Homo sapiens	ENSG00000082153	2 retrocopies	retro_hsap_2832, retro_hsap_2881,
Gorilla gorilla	ENSGGOG00000016296	1 retrocopy	retro_ggor_1997 ,
Mustela putorius furo	ENSMPUG00000012344	1 retrocopy	retro_mputfur_1174,
Mus musculus	ENSMUSG00000051223	3 retrocopies	retro_mmus_2499, retro_mmus_751, retro_mmus_990,
Nomascus leucogenys	ENSNLEG00000006929	1 retrocopy	retro_nleu_621,
Pan troglodytes	ENSPTRG00000012791	1 retrocopy	retro_ptro_1949,