RetrogeneDB ID: retro_ggor_1782

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2b:62198064..62198635(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LRRC2
• Ensembl ID: ENSGGOG00000004427
• Aliases: None
• Description: None

Sequence

>retro_ggor_1782
AATGGCTTCATAGACATTCATAGCATGCAGCTTCTGGAAAAGATAGAAAGGAAAGCTCTCACAAGGCAGAGTTCACTTCC
CAAGGACAGAGGCAAATGGAGCAGTGCGTTTGTGTTTGGACTTTCTGGGCAGCACTGGACGGAGCTGCCAGATTTGTTAA
AGGAGCAGATGCACCTGAGAGAATGGCATGTATGCGACACCCTGATTCAAATTACTCCTACATATATTGAGCTGTTTCAA
GCCATGAGAATTCAGGATCTGCCAAAGAAACAAATCTCACATTTTCCAGCTAAACTCGGTTGTTTGAAGAACCTGAAATA
ACTCAATGTGAGTTTCAACTATCTGAAGAGCATTCCTCCAGAGCTGGGAGATTGTGAAATCTAGAGGGACTGGATTGTTC
TGGAAATCTGGAATTCACAGAGCTGCCTTTTGAATTAAGTAATTGGAAGCCAGTTGCATTCGTAGATATCTCAGCAAACA
AGTTTTCCAGTGTCCCAATCTGTGTCCTGAGGATGTCTATTTGCAGTGGTTGGATATCAGCAACAATAACCTGACTGCCT
TGCGGCAAGAT

Alignment

ORF - retro_ggor_1782 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.38 %
• Parental protein coverage: 51.21 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NGFIDT-SVRLLDKIERNTLTRQSSLPKDRGKRSSAFVFELSGEHWTELPDSLKEQTHLREWHISNTLIQ
          NGFID..S..LL.KIER..LTRQSSLPKDRGK.SSAFVF.LSG.HWTELPD.LKEQ.HLREWH...TLIQ
Retrocopy NGFIDIHSMQLLEKIERKALTRQSSLPKDRGKWSSAFVFGLSGQHWTELPDLLKEQMHLREWHVCDTLIQ

Parental  IIPTYIELFQAMRILDLPKNQISHLPAEIGCLKNLKELNVSFNYLKSIPPELGDCE-NLERLDCSGNLEL
          I.PTYIELFQAMRI.DLPK.QISH.PA..GCLKNLK.LNVSFNYLKSIPPELGDCE.NLE.LDCSGNLE.
Retrocopy ITPTYIELFQAMRIQDLPKKQISHFPAKLGCLKNLK*LNVSFNYLKSIPPELGDCE<NLEGLDCSGNLEF

Parental  MELPFELSNLKQVTFVDISANKFSSVPICVLRMS-NLQWLDISSNNLTDLPQD
          .ELPFELSN.K.V.FVDISANKFSSVPICVLRMS..LQWLDIS.NNLT.L.QD
Retrocopy TELPFELSNWKPVAFVDISANKFSSVPICVLRMS<YLQWLDISNNNLTALRQD

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	0.91 RPM
SRP007412_cerebellum	0.00 RPM	0.95 RPM
SRP007412_heart	0.00 RPM	8.79 RPM
SRP007412_kidney	0.00 RPM	1.06 RPM
SRP007412_liver	0.00 RPM	1.11 RPM
SRP007412_testis	0.00 RPM	1.66 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_1782 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1782 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2346
Pan troglodytes	retro_ptro_1718
Pongo abelii	retro_pabe_2124

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002149	1 retrocopy	retro_cjac_2714,
Homo sapiens	ENSG00000163827	1 retrocopy	retro_hsap_2346,
Gorilla gorilla	ENSGGOG00000004427	1 retrocopy	retro_ggor_1782 ,
Pongo abelii	ENSPPYG00000013932	1 retrocopy	retro_pabe_2124,
Pan troglodytes	ENSPTRG00000014852	1 retrocopy	retro_ptro_1718,