RetrogeneDB ID: retro_ocun_1922

Retrocopy location

• Organism: Rabbit (Oryctolagus cuniculus)
• Coordinates: X:37318048..37318372(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RGS17
• Ensembl ID: ENSOCUG00000021054
• Aliases: None
• Description: regulator of G-protein signaling 17 [Source:HGNC Symbol;Acc:14088]

Sequence

>retro_ocun_1922
ATGCGAAAAAGGCAGCAGTCACAAAATGAAGGAACACCTGCTATGTCCCAAGCTCCTGGAAACCAGAGGCCCAAAAACAC
GTGTTGCTTTTGCTGGTGCTGTTATTGCAGCTGCTCCTTCCTCACCATTAGGAATGATGAAAGGGGAGAAAATTCAGGAA
GACCCACATATACCATAAAAATGGAAAGTATCCAGGTCCAAGAAGAATGCCAAAACCCCGCTGCAGATGAAGTCTTGTCC
TGGTCTCAGAATTTTGACAAGCTGATGAAAGCCCCAGCAGGAAGAAATCTTTCCAGAGAGTTCTTCCACACAGAATACAG
TGAG

Alignment

ORF - retro_ocun_1922 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.96 %
• Parental protein coverage: 51.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRKRQQSQNEGTPAVSQAPGNQRPNNTCCFCWCCCCSCSCLTVRNEERGENAGRPTHTTKMESIQVLEEC
          MRKRQQSQNEGTPA.SQAPGNQRP.NTCCFCWCC.CSCS.LT.RN.ERGEN.GRPT.T.KMESIQV.EEC
Retrocopy MRKRQQSQNEGTPAMSQAPGNQRPKNTCCFCWCCYCSCSFLTIRNDERGENSGRPTYTIKMESIQVQEEC

Parental  QNPAADEVLSWSQNFDKLMKAPAGRNLFREFLRTEYSE
          QNPAADEVLSWSQNFDKLMKAPAGRNL.REF..TEYSE
Retrocopy QNPAADEVLSWSQNFDKLMKAPAGRNLSREFFHTEYSE

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
SRP017611_brain	0.00 RPM	16.34 RPM
SRP017611_kidney	0.00 RPM	0.51 RPM
SRP017611_liver	0.00 RPM	0.00 RPM

ChIP-Seq

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ocun_1922 retrocopy.

TSS

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab

retro_ocun_1922 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ocun_1922 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000091844	1 retrocopy	retro_hsap_1254,
Gorilla gorilla	ENSGGOG00000026033	1 retrocopy	retro_ggor_987,
Macaca mulatta	ENSMMUG00000019078	1 retrocopy	retro_mmul_1309,
Nomascus leucogenys	ENSNLEG00000015461	1 retrocopy	retro_nleu_2092,
Oryctolagus cuniculus	ENSOCUG00000021054	1 retrocopy	retro_ocun_1922 ,
Pan troglodytes	ENSPTRG00000029367	1 retrocopy	retro_ptro_3042,