RetrogeneDB ID: retro_cfam_163

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 38:23033580..23034579(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCAFG00000024352
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: OR6K3
• Ensembl ID: ENSCAFG00000025459
• Aliases: None
• Description: olfactory receptor, family 6, subfamily K, member 3 [Source:HGNC Symbol;Acc:15030]

Sequence

>retro_cfam_163
TTGAGCTGGTATGTGCCCTCTCCTGCATTCACAGGGAGCTCTGCTGGGCACATGGAGGGTGCAAATCTGTCAGCAGTGAT
GGAATTTGTCTTCACTGGCTTCCCCCAGCTCCAGGATGGTGGCCTCCTGTACTTCTTCCCCTTACTCTTCATCTACGCCT
TTGTTGTCGTTGGGAATCTATTGATCTTCTTTGCGGTCAGGATGGATGCCCGCCTCCACAACCCCATGTACAACTTCATC
AGCACCTTCTCCTTCCTGGAGGTCTGGTACACCACAGCCACCATCCCCAAGATGCTCTCCAACCTGATCAGTGAGAAGAA
GACCATCTCCATGACCGGCTGCCTCCTGCAGATGTACTTCTTCCATTCCCTTGGGAACACTGAAGGAGCCCTGCTGACTG
TCATGGCCATTGACAGGTACGTGGCCATCTGCAACCCACTCCGCTACCTGACCATCATGACCCCTCGGCTGTGTGCTCAG
CTCTCTGCAGGCTCTTGTATCTTTGGTCTCCTCATCCTTCTACCTGAGATTGTGTGGATTTCTACTCTGCCCTTCTGTGG
CCCCAACCAAATCCATCAGATCTTCTGTGACTTCACACCGTTATTACGTTTAGCCTGTACTGATGCCTCTGTGATCCTGG
TGCAAGATGTGATTCATGCTCTGGCCATTCTGATAACAGGTCTGATCATTTCCCTTTCCTACATCAGAATTGTCACCGTG
ATCCTGGGCATCCCTTCTGCAGAGGGCCGTAAAAAGGCCTTCTCCACCTGTGCCGCCCACATTGCTGTCTTCCTGCTATT
TTTCGGCAGCGTGGCCCTCATGTATCTTAGATTCTCTGCCACGTATACACCATTCTGGGATGCTGCCATTGCTCTGACCT
TCTCTGTCCTCTCCCCCTTTTTCAATCCCATTATATACAGCCTGAGAAATAAGGATATGAAAGATGCTATTAAGAAACTC
CTTTGCCCTCAAAAGGTGTTTAATGTACCTGGTAGGTGA

Alignment

ORF - retro_cfam_163 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.85 %
• Parental protein coverage: 99.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LSWYVPSPAFTGSSAGHMEGANLSAVTEFVFTGFPQLQDGGLLYFFPLLFIYTFVVVGNLLIFFAVRMDV
          LSWYVPSPAFTGSSAGHMEGANLSAV.EFVFTGFPQLQDGGLLYFFPLLFIY.FVVVGNLLIFFAVRMD.
Retrocopy LSWYVPSPAFTGSSAGHMEGANLSAVMEFVFTGFPQLQDGGLLYFFPLLFIYAFVVVGNLLIFFAVRMDA

Parental  RLHNPMYNFISTFSFLEVWYTTATIPKMLSNLVSEKKTISMTGCLLQMYFFHSLGNSEAILLITMAIDRY
          RLHNPMYNFISTFSFLEVWYTTATIPKMLSNL.SEKKTISMTGCLLQMYFFHSLGN.E..LL..MAIDRY
Retrocopy RLHNPMYNFISTFSFLEVWYTTATIPKMLSNLISEKKTISMTGCLLQMYFFHSLGNTEGALLTVMAIDRY

Parental  VAICNPLRYQMIMTPRLCAQLSAGSCIFGFLILLPEIVTISTLPFCGPNQIHQIFCDLVPVLRLACTNAS
          VAICNPLRY..IMTPRLCAQLSAGSCIFG.LILLPEIV.ISTLPFCGPNQIHQIFCD..P.LRLACT.AS
Retrocopy VAICNPLRYLTIMTPRLCAQLSAGSCIFGLLILLPEIVWISTLPFCGPNQIHQIFCDFTPLLRLACTDAS

Parental  VILVEDVIHAVAIIITILIIALSYIRIVSVILRIPSAEGRQKAFSTCGGHLTVFLIFFGSVSLMYLRFNA
          VILV.DVIHA.AI.IT.LII.LSYIRIV.VIL.IPSAEGR.KAFSTC..H..VFL.FFGSV.LMYLRF.A
Retrocopy VILVQDVIHALAILITGLIISLSYIRIVTVILGIPSAEGRKKAFSTCAAHIAVFLLFFGSVALMYLRFSA

Parental  TYPPALDTAIALMFTVLAPFFHPIIYSLRNKDMKNATKSFLSLQQVLGRP
          TY.P..D.AIAL.F.VL.PFF.PIIYSLRNKDMK.A.K..L..Q.V...P
Retrocopy TYTPFWDAAIALTFSVLSPFFNPIIYSLRNKDMKDAIKKLLCPQKVFNVP

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
SRP012049_cerebellum	0.00 RPM	0.00 RPM
SRP017611_brain	0.00 RPM	0.00 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_163 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_163 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_163 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000025459	1 retrocopy	retro_cfam_163 ,
Macaca mulatta	ENSMMUG00000000734	2 retrocopies	retro_mmul_536, retro_mmul_9,