RetrogeneDB ID: retro_cfam_2183

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: X:74413540..74414068(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AEN
• Ensembl ID: ENSCAFG00000011521
• Aliases: AEN, ISG20L1
• Description: apoptosis enhancing nuclease [Source:HGNC Symbol;Acc:25722]

Sequence

>retro_cfam_2183
CCAGAAGATGACAAGAAAGATGGTGGCAATTGTGAGATGGTGGGTACAGGACCCAAGGGGCATGTCAGTTTCTTGGCTGG
ATGTAGCACTGTCAACTACCACGGAGATGTACTTTATGATGAGTACATCCTTCCACCCTGCTACATAGTTGACTACTGGA
CCAGATGGAGTAGTATCTGGAAGCATCACATGTTGAATGCTACACCCTTCAAGATCGCTCAGAGCCAGATTTTGAAGATA
CAGGAAAGACAGAGGGGGCATGCCATCCACAACTTCAAAGCTCTTCAGTACTTTCACTCTAAGTCCCTCACTCACGACAC
CTCCCATACCCCTTTCTTCCCCAACCAGAAGTCCAACTGCCTGAAGAATGCCACCATGTCTCTGAAGTGTCTCAACAAGA
AGCTTCTGAACCAGGGCATCTAGATTGGGCAAAGTGGACATTCCTCTGTGGAACATGCTCAGGCCACTATGGAGCTGTAC
AAGTTGGTTGAAGTCGAGTGGGAACAGCACCTGGCCCACGATCCCCCA

Alignment

ORF - retro_cfam_2183 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.4 %
• Parental protein coverage: 54.94 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PRPSKCVAIDCEMVGTGPRGRVSELARCSVVSYHGDVLYDKYIRPEMPIVDYRTRWSGVTRQHMRKAIPF
          P...K.....CEMVGTGP.G.VS.LA.CS.V.YHGDVLYD.YI.P...IVDY.TRWS.....HM..A.PF
Retrocopy PEDDKKDGGNCEMVGTGPKGHVSFLAGCSTVNYHGDVLYDEYILPPCYIVDYWTRWSSIWKHHMLNATPF

Parental  QVAQKEILKLLKGKVVVGHALHNDFQALKYVHPRSQTRDTTYVPNLLHQ-PGLHTRTRVSLKDLALQLLH
          ..AQ..ILK........GHA.HN.F.AL.Y.H..S.T.DT...P....Q..........SLK.L...LL.
Retrocopy KIAQSQILKIQERQ--RGHAIHN-FKALQYFHSKSLTHDTSHTPFFPNQKSNCLKNATMSLKCLNKKLLN

Parental  KKIQAGQHGHSSVEDATTAMELYRLVEVQWEQQQASSLP
          ..I..GQ.GHSSVE.A...MELY.LVEV.WEQ..A...P
Retrocopy QGI*IGQSGHSSVEHAQATMELYKLVEVEWEQHLAHDPP

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	11.51 RPM
SRP017611_brain	0.00 RPM	6.43 RPM
SRP017611_kidney	0.00 RPM	2.25 RPM
SRP017611_liver	0.00 RPM	4.86 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_2183 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_2183 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_2183 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000011521	1 retrocopy	retro_cfam_2183 ,
Erinaceus europaeus	ENSEEUG00000007015	1 retrocopy	retro_eeur_364,
Microcebus murinus	ENSMICG00000015849	1 retrocopy	retro_mmur_776,
Tursiops truncatus	ENSTTRG00000014668	1 retrocopy	retro_ttru_1742,