RetrogeneDB ID: retro_cfam_606

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 14:45473701..45474054(+)
• Located in intron of: ENSCAFG00000003161

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCAFG00000030791
• Aliases: None
• Description: Sulfurtransferase [Source:UniProtKB/TrEMBL;Acc:J9NY89]

Sequence

>retro_cfam_606
CTTCTTAAAGAAGTTATTTATCAAGAATCTAACAAACTACTGAATTACAAAACATTAGGTTAATTGATGTTAGACATTGG
GCATTCTTAAACACGGGAAAATTCCAAGGTCCGTTGATATACCATTAAATGAGGTAGACCAAGCTCATAGGAACCTGAGA
TACTTCAAAGAGAAGTACAATAAAAAAAAAAAATCCAAATCTGGCAGTCTAGTGTATTCTTGCCTAGCTAGAAGAGAAAG
AAGTGAAGACTTTGGACAGAGCAATATCTTTGGGCTTTCATAGTGCTCAGTACCATGCTGGATTTTGGAAAAAGTGGGCA
ACATATGAATTTTTAGAGAATAAAGAAGGACAT

Alignment

ORF - retro_cfam_606 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.91 %
• Parental protein coverage: 75.47 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  IFKDVTYKELKNLLNSK-KIMLIDVRETWE-IVKYGKIPGSVNIPLGEVGEALQMNPKDFKEKYNEVKPS
          ..K.V.Y.E...LLN.K..I.LIDVR..W..I.K.GKIP.SV.IPL.EV..A...N...FKEKYN....S
Retrocopy LLKEVIYQESNKLLNYK<NIRLIDVRH-WA<ILKHGKIPRSVDIPLNEVDQA-HRNLRYFKEKYNXXXXS

Parental  KSDSLVFSCLAG-VRSKKALDTAISLGFNSAQHYAGGWNEWATYEFSEKKHGN
          KS.SLV.SCLA......K.LD.AISLGF.SAQ..AG.W..WATYEF.E.K.G.
Retrocopy KSGSLVYSCLAR>EKEVKTLDRAISLGFHSAQYHAGFWKKWATYEFLENKEGH

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	0.13 RPM	3.32 RPM
SRP017611_brain	0.00 RPM	1.83 RPM
SRP017611_kidney	0.00 RPM	0.66 RPM
SRP017611_liver	0.00 RPM	0.36 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_606 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_606 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_606 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Equus caballus	retro_ecab_791

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008959	1 retrocopy	retro_amel_1055,
Bos taurus	ENSBTAG00000038931	1 retrocopy	retro_btau_1353,
Canis familiaris	ENSCAFG00000030791	1 retrocopy	retro_cfam_606 ,
Callithrix jacchus	ENSCJAG00000031571	1 retrocopy	retro_cjac_1967,
Equus caballus	ENSECAG00000024361	1 retrocopy	retro_ecab_791,
Gorilla gorilla	ENSGGOG00000022586	1 retrocopy	retro_ggor_1345,
Otolemur garnettii	ENSOGAG00000025707	2 retrocopies	retro_ogar_2601, retro_ogar_527,