RetrogeneDB ID: retro_ggor_26

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:149404517..149406302(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000027497
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: UBQLN4
• Ensembl ID: ENSGGOG00000008916
• Aliases: None
• Description: None

Sequence

>retro_ggor_26
GAGCCGAGCGGGGCCGAGACGTGGCCCCCCATTCGGGTCACCGTCAAGACCCCCAAGGACAAGGAGGAAATTGTGATCTG
CGATCGAGCCTTGGTCAAGGAGTTCAAAGAGGAAATCTCCCGGAGGTTTAAGGCTCAGCAGGATCAGCTGGTCCTGATCT
TCGCAGGCAAGATCCTCAAGGATGGGGACACACTGAACCAGCACGGAATCAAGGACGGGCTCACTGTCCATCTGGTCATC
AAGACCCCTCAGAAGGCTCAAGATCCAGCTGCTGCCACTTCTTCTTCCCCCTCCACACCTGACCCTGCCTCAGCACCCTC
CACCACGCCTGCTTCACCCGCCACCCCTGCCCAGCCCTCCACCTCTGGCAGTGCCTCTTCGGATGCTGGCAGTGGAAGCC
GGAGGAGCAGTGGTGGGGGGCCCTCTCCAGGGGCTGGGGAGGGATCCCCCAGTGCTACTGCGTCCATACTCTCTGGCTTT
GGGGGCATCCTGGGGCTGGGCAGCCTGGGCCTGGGCTCTGCCAACTTCATGGAGCTGCAGCAGCAGATGCAGAGGCAGCT
GATGTCCAATCCTGAGATGCTGTCGCAGATCATGGAGAACCCCCTGGTCCAGGATATGATGTCTAACCCTGAACTGATGC
GTCACATGATTATGGCCAACCCCCAGATGCAGCAGTTGATGGAGCGGAACCCTGAGATCAGCCACATGCTCAATAACCCT
GAACTCATGAGGCAGACAATGGAGCTTGCTCGGAATCCAGCCATGATGCAAGAGATGATGCGGAACCAGGACTGGGCCCT
GAGCAACCTTGAGAGCATCCCTGGAGGGTATAATGCCCTCCGCCGCATGTACACGGACATCCAGGAGCCCATGTTCAGTG
CTGCCCGGGAAGAGTTTGGCAACAATCCCTTCTCTTCCCTGGCCGGGAACTCCGACAGCTCATCCTCCCAGCCTCTGTGG
ACTGAGAATCGAGAGCTCCTCCCTAACCCCTGGAGCCCCTCGCCCCCCACCTCCCAGGCCCCCGGGTCCGGTGGGGAGGG
CACCGGAGGATCGGGGACCAGCCAGGTGCACCCGACGGTCTCGAACCCCTTTGGGATCAATGCGGCTAGCCTGGGGTCAG
GGATGTTCAATAGCCCAGAAATGCAAGCCCTCCTCCAGCAGATCTCTGAGAACCCCCAGCTGATGCAGAATGTGATCTCA
GCATCCTACATGCGCAGCATGATGCAGACACTTGCCCAGAACCCCGACTTTGCTGCTCAGATGATGGTGAATGTGCCGCT
CTTCGCGGGGAACCCCCAACTGCCGGAGCAGCTCCGCCTGCAGCTCCCAGTCTTCCTGCAGCAGATGCAGAACCCAGAGT
CACTCTTCATCCTTACCAATCCCCGAGCCATGCAGGCATTGCTGCAGATCCAGCAGGGACTACAGACCTTGCAGACCGAG
GCCCCTGGGTGCTCCTTTGGGATGTCCCGGACCCCAGCACCCTCAGCAGGCAGCAACGCAGGGTCTACGCCCGAGGCCCC
CACTTCCTCACCAGCCACGCCAGCCACATCTTCTCCAACAGGGGCTTCCAGCACCCAGCAGCAACTCATGCAGCAGATGA
TCCAGCTTTTGGCCGGAAGTGGAAACTCACAGGTTCAGACGCCAGAAGTGAGATTTCAGCAGCAGCTGGAGCAGCTCAAC
TCCATGGGCTTCATCTATCGTGAGGCCAACCTGCAGGCCCTGATTGCCACAGGAGGGGACATCAACGCAGCTATCGAGAG
ACTGCTGGGCTCCCAGCTCTCCTAA

Alignment

ORF - retro_ggor_26 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.58 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QFKEEISRRFKAQQDQLVLIFAGKILKDGDTLNQHGIKDGLTVHLVIKTPQKAQDPAAATASSPSTPDPA
          .FKEEISRRFKAQQDQLVLIFAGKILKDGDTLNQHGIKDGLTVHLVIKTPQKAQDPAAAT.SSPSTPDPA
Retrocopy EFKEEISRRFKAQQDQLVLIFAGKILKDGDTLNQHGIKDGLTVHLVIKTPQKAQDPAAATSSSPSTPDPA

Parental  SAPSTTPASPATPAQPSTSGSASSDAGSGSRRSSGGGPSPGAGEGSPSATASILSGFGGILGLGSLGLGS
          SAPSTTPASPATPAQPSTSGSASSDAGSGSRRSSGGGPSPGAGEGSPSATASILSGFGGILGLGSLGLGS
Retrocopy SAPSTTPASPATPAQPSTSGSASSDAGSGSRRSSGGGPSPGAGEGSPSATASILSGFGGILGLGSLGLGS

Parental  ANFMELQQQMQRQLMSNPEMLSQIMENPLVQDMMSNPDLMRHMIMANPQMQQLMERNPEISHMLNNPELM
          ANFMELQQQMQRQLMSNPEMLSQIMENPLVQDMMSNP.LMRHMIMANPQMQQLMERNPEISHMLNNPELM
Retrocopy ANFMELQQQMQRQLMSNPEMLSQIMENPLVQDMMSNPELMRHMIMANPQMQQLMERNPEISHMLNNPELM

Parental  RQTMELARNPAMMQEMMRNQDRALSNLESIPGGYNALRRMYTDIQEPMFSAAREQFGNNPFSSLAGNSDS
          RQTMELARNPAMMQEMMRNQD.ALSNLESIPGGYNALRRMYTDIQEPMFSAARE.FGNNPFSSLAGNSDS
Retrocopy RQTMELARNPAMMQEMMRNQDWALSNLESIPGGYNALRRMYTDIQEPMFSAAREEFGNNPFSSLAGNSDS

Parental  SSSQPLRTENREPLPNPWSPSPPTSQAPGSGGEGTGGSGTSQVHPTVSNPFGINAASLGSGMFNSPEMQA
          SSSQPL.TENRE.LPNPWSPSPPTSQAPGSGGEGTGGSGTSQVHPTVSNPFGINAASLGSGMFNSPEMQA
Retrocopy SSSQPLWTENRELLPNPWSPSPPTSQAPGSGGEGTGGSGTSQVHPTVSNPFGINAASLGSGMFNSPEMQA

Parental  LLQQISENPQLMQNVISAPYMRSMMQTLAQNPDFAAQMMVNVPLFAGNPQLQEQLRLQLPVFLQQMQNPE
          LLQQISENPQLMQNVISA.YMRSMMQTLAQNPDFAAQMMVNVPLFAGNPQL.EQLRLQLPVFLQQMQNPE
Retrocopy LLQQISENPQLMQNVISASYMRSMMQTLAQNPDFAAQMMVNVPLFAGNPQLPEQLRLQLPVFLQQMQNPE

Parental  SLSILTNPRAMQALLQIQQGLQTLQTEAPGLVPSLGSFGMSRTPAPSAGSNAGSTPEAPTSSPATPATSS
          SL.ILTNPRAMQALLQIQQGLQTLQTEAPG...S.G........A.S........P......PAT...SS
Retrocopy SLFILTNPRAMQALLQIQQGLQTLQTEAPGC--SFGMSRTPAPSAGSNAGSTPEAPTSSPATPAT---SS

Parental  PTGASSAQQQLMQQMIQLLAGSGNSQVQTPEVRFQQQLEQLNSMGFINREANLQALIATGGDINAAIERL
          PTGASS.QQQLMQQMIQLLAGSGNSQVQTPEVRFQQQLEQLNSMGFI.REANLQALIATGGDINAAIERL
Retrocopy PTGASSTQQQLMQQMIQLLAGSGNSQVQTPEVRFQQQLEQLNSMGFIYREANLQALIATGGDINAAIERL

Parental  LGSQLS
          LGSQLS
Retrocopy LGSQLS

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	2.16 RPM	58.60 RPM
SRP007412_cerebellum	1.81 RPM	40.97 RPM
SRP007412_heart	0.41 RPM	8.79 RPM
SRP007412_kidney	0.45 RPM	27.35 RPM
SRP007412_liver	0.21 RPM	17.36 RPM
SRP007412_testis	0.73 RPM	20.62 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_26 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_26 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2859
Pan troglodytes	retro_ptro_1934

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000160803	1 retrocopy	retro_hsap_2859,
Gorilla gorilla	ENSGGOG00000008916	1 retrocopy	retro_ggor_26 ,
Macropus eugenii	ENSMEUG00000016573	1 retrocopy	retro_meug_109,
Microcebus murinus	ENSMICG00000002222	1 retrocopy	retro_mmur_1146,
Macaca mulatta	ENSMMUG00000009983	1 retrocopy	retro_mmul_905,
Monodelphis domestica	ENSMODG00000016961	1 retrocopy	retro_mdom_530,
Pan troglodytes	ENSPTRG00000001444	1 retrocopy	retro_ptro_1934,