RetrogeneDB ID: retro_ggor_130

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 17:17283896..17284832(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024197
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: MED27
• Ensembl ID: ENSGGOG00000010390
• Aliases: None
• Description: None

Sequence

>retro_ggor_130
ATGGCGGACGTGATAAATGTCAGTGTGAACCTGGAGGCCTTTTCCCAGGCCATTAGTGCCATCCAGGCGCTGCGCTCCAG
CGTGAGCAGGGTGTTCGACCGCCTGAAGGATGGGATGCGGAACAAGGAGACGCTGGAGGGCCGGGAGAAGGCCTTCATTG
CGCACTTCCAGGACAGCTTACATTTGGTCAACCGGGACCTCAATGAGCTGGAACGTCTGAGCAATCTGGTAGGCAAGCCA
TCTGAGAACCATCCTCTTCATAACAGTGGGCTGTTAAGCCTGGATCCTGTGCAGGACAAAACGCCTCTCTATAGTCAACT
CCTTCAAGCATATAAGTGGTCAAACAAGTTGCAGTACCATGCAGGACTAGCATCTGGCCTTTTAAATCAGCAGTCGTTGA
AGCGTTCCGCTAATCAGATGGGAGTATCTGCCAAACGTAGACCAAAGGCTCAGCCCACAACTCTTGTCCTACCACCTCAA
TATGTTGATGATGTGATCAGCCGCATTGACAGGATGTTTCCTGAAATGTCCATCCACTTATCCAGACCCAATGGAACATC
AGCAATGCTTCTGATGACCTTGGGAAAGGTGTTGAAAGTGATCGTCATCATGCGGAGCCTGTTCATTGATCGAACAATAG
TAAAGGGATATAACGAGAATGTCTACACAGAAGATGGCAAGCTTGATATATGGTCCAAATCCAACTATCAAGTATTCCAG
AAGGTGACAGACCACGCCACCACGGCCCCGCTCCACTATCAGCTGCCCCAGATGCCGGATGTCGTAGTCCGATCCTTCAT
GACCTGGGTAAGAAGTTACATAAAGCTGTTCCAGGCCCCATGCCAGCGCTGCGGGAAGTTTCTGCAGGACGGCCTTCCCC
CGACATGGAGGGATTTCCGAACCCTCGAAGCCTTCCATGACACCTGCCGGCAGTAG

Alignment

ORF - retro_ggor_130 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.75 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNLHSVNRDLNEL
          MADVINVSVNLEAFSQAISAIQALRSSVSRVFD.LKDGMRNKETLEGREKAFIAHFQD.LH.VNRDLNEL
Retrocopy MADVINVSVNLEAFSQAISAIQALRSSVSRVFDRLKDGMRNKETLEGREKAFIAHFQDSLHLVNRDLNEL

Parental  ERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYHAGLASGLLNQQSLKRSANQM
          ERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYHAGLASGLLNQQSLKRSANQM
Retrocopy ERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYHAGLASGLLNQQSLKRSANQM

Parental  GVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHLSRPNGTSAMLLVTLGKVLKVIVVMRSLFID
          GVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHLSRPNGTSAMLL.TLGKVLKVIV.MRSLFID
Retrocopy GVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHLSRPNGTSAMLLMTLGKVLKVIVIMRSLFID

Parental  RTIVKGYNENVYTEDGKLDIWSKSNYQVFQKVTDHATTALLHYQLPQMPDVVVRSFMTWLRSYIKLFQAP
          RTIVKGYNENVYTEDGKLDIWSKSNYQVFQKVTDHATTA.LHYQLPQMPDVVVRSFMTW.RSYIKLFQAP
Retrocopy RTIVKGYNENVYTEDGKLDIWSKSNYQVFQKVTDHATTAPLHYQLPQMPDVVVRSFMTWVRSYIKLFQAP

Parental  CQRCGKFLQDGLPPTWRDFRTLEAFHDTCRQ
          CQRCGKFLQDGLPPTWRDFRTLEAFHDTCRQ
Retrocopy CQRCGKFLQDGLPPTWRDFRTLEAFHDTCRQ

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	10.21 RPM
SRP007412_cerebellum	0.00 RPM	4.73 RPM
SRP007412_heart	0.00 RPM	2.81 RPM
SRP007412_kidney	0.00 RPM	4.21 RPM
SRP007412_liver	0.00 RPM	1.77 RPM
SRP007412_testis	0.31 RPM	9.01 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_130 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_130 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3342
Pan troglodytes	retro_ptro_87
Pongo abelii	retro_pabe_109

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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	ENSG00000160563	1 retrocopy	retro_hsap_3342,
Gorilla gorilla	ENSGGOG00000010390	1 retrocopy	retro_ggor_130 ,
Loxodonta africana	ENSLAFG00000011556	1 retrocopy	retro_lafr_931,
Myotis lucifugus	ENSMLUG00000000364	1 retrocopy	retro_mluc_243,
Nomascus leucogenys	ENSNLEG00000012828	1 retrocopy	retro_nleu_115,
Pongo abelii	ENSPPYG00000019706	1 retrocopy	retro_pabe_109,
Pan troglodytes	ENSPTRG00000021492	1 retrocopy	retro_ptro_87,