RetrogeneDB ID: retro_ggor_2263

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:59090023..59090469(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000027850
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MEIS3
• Ensembl ID: ENSGGOG00000001093
• Aliases: None
• Description: None

Sequence

>retro_ggor_2263
ATGGCCCGGAGGTACGATGAGCTGCGCACTACCCAGGCATCGCGGATGGCCCCGCAGCCCTGGCTGGCTTCCCAGAGGCA
GTGCCCGCGGCACCAGGGCCCTATGGTCCTCACCGGCCTCCCCAACCCCTACCCCCCAGGCTTGGACAGCGATGGCCTGA
AGAGGGACAAGGATGAGATCTATGGACACCCGCTCTTCCCCCTCTTGGCCCCGGTCTTTGAGAAATGTGAACTGGCTACA
TGCTCTCCCCGTGATGGGGCCGCAGCTGGGCTGGGGACACCCCGCGGCGGCGACGTCTGCTCCTCTGATTCCTTCAACGA
GGACAACACTGCCTTCGCCAAGCAGGTTCGCTCTGAGAGGCCCTTCTTCTCCTCCAACCCAGAACTGGACAATCTGATGA
TCCAGGCCATCAAGTGCTGCGGTTCCACCTGCTAGAGCTGGAGAAG

Alignment

ORF - retro_ggor_2263 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.45 %
• Parental protein coverage: 52.1 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MARRYDEL-PHYPGIGDGPAALAGFPEAVPAVPGPYGPHRPPQPLPP-GLDSDGLKREKDEIYGHPLFPL
          MARRYDEL..HYPGI.DGPAALAGFPEAVPA.PGPYGPHRPPQPLPP.GLDSDGLKR.KDEIYGHPLFPL
Retrocopy MARRYDEL<AHYPGIADGPAALAGFPEAVPAAPGPYGPHRPPQPLPP>GLDSDGLKRDKDEIYGHPLFPL

Parental  LALVFEKCELATCSPRDGAGAGLGTPPGGDVCSSDSFNEDIAAFAKQVRSERPLFSSNPELDNLMIQAI-
          LA.VFEKCELATCSPRDGA.AGLGTP.GGDVCSSDSFNED..AFAKQVRSERP.FSSNPELDNLMIQAI.
Retrocopy LAPVFEKCELATCSPRDGAAAGLGTPRGGDVCSSDSFNEDNTAFAKQVRSERPFFSSNPELDNLMIQAI<

Parental  QVLRFHLLELEK
          QVLRFHLLELEK
Retrocopy QVLRFHLLELEK

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	19.37 RPM
SRP007412_cerebellum	0.00 RPM	0.71 RPM
SRP007412_heart	0.00 RPM	0.75 RPM
SRP007412_kidney	0.00 RPM	1.19 RPM
SRP007412_liver	0.00 RPM	0.63 RPM
SRP007412_testis	0.31 RPM	0.41 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_2263 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2263 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000105419	2 retrocopies	retro_hsap_1718, retro_hsap_1731,
Gorilla gorilla	ENSGGOG00000001093	1 retrocopy	retro_ggor_2263 ,
Mustela putorius furo	ENSMPUG00000004760	1 retrocopy	retro_mputfur_69,
Pan troglodytes	ENSPTRG00000011208	1 retrocopy	retro_ptro_3061,