RetrogeneDB ID: retro_cfam_320

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 1:78409619..78410912(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENO2
• Ensembl ID: ENSCAFG00000014523
• Aliases: None
• Description: enolase 2 (gamma, neuronal) [Source:HGNC Symbol;Acc:3353]

Sequence

>retro_cfam_320
ATGTCTATTCTCAAGATCCACGCCAGGGAGATCTTTGACTCTCGCAGGAACCCCACTGCTGAGGTTGACCTCTACACCTC
CAAAGGTCTCTTCAGAGCTGCTGTGCCCAGTGGTGCCTCCACTGGTATCTATGAGGCCCTCAAGCTCCGGGACAATGACA
AGACACGCTACATGGGGAAAGGTGTCTCAAAGGCTGTTGAGCATATCAATAAAACTATTGCACCTGCCCTGATTAGCAAG
AAAGTGAACGTTGTGGAGCAGGAAAAGATTGACAAACTGATGATCGAGATGGATGGGACAGAGAATAAATCTAAATTTGG
TGCAAACGCCATTCTGGGAGTGTCCCTGGCTATCTGCAAGGCAGGGGCTGTTGAGAAGGGGGTGTCCCTGTACTGCCACA
TTGCTGATTTGGCTGGCAATTCTGAAGTTATCCTGCCAGTTCCGGCTTTCAATGTCATCAACGGTGGTTCCCATGCTGGC
AACAAGCTGGCCATGTAGGAGTTCATGATCCTTCCCATCGGTGCAGCGAACTTCAAGGAGGCCATGCGCATCGGAGCAGA
GGTTTATCATAACCTGAAGAATGTCATCAAGGAGAAATATGGAAAAGATGCCACCAATGTGGGCGATGAAGGTGGATTTG
CTCCTAATATCCTGGAGAACAAAGAAGCTCTGGAACTGCTGAAGAATGCCATCGGGAAGGCTGGCTACACCGATAAGGTG
GTCATCGGCATGGACGTAGCTGCTTCCGAGTTCTTCAGGTCTGGGAAGTATGACCTGGACTTCAAGTCCCCTGATGACCC
CAACAGGTACATCACGCCTGACCAGCTGGCTGACCTCTACAAGTCCTTCATCAGGGACTACCCAGTGGTATCTATCGAAG
ACCCCTTCGACCAGGATGACTGGGAAGCTTGGCAGAAGTTCACTGCCAGCGCTGGAATCCAGGTGGTGGGGGATGATCTC
ACCGTGACCAACCCAAAGCGGATTTCCAAGGCTGTGGGTGAGAAATCGTGCAACTGCCTCCTGCTTAAAGTGAACCAGAT
TGACTCTGTGACCGAGTCTCTTCAGGCGTGCAAACTGGCCCAGTCCAATGGGTGGGGCATCATGGTGTCGCATCGCTCCG
GGGAGACCGAAGATACTTTCATTGCTGACCTGGTGGTGGGACTCTGCACTGGGCAGATCAAGACGGGTGCACCATGCAGA
TCTGAGCGCTTGGCCAAGTACAACCAGATCCTCAGAATTGAAGAGGAATTGGGTAGCAAGGCCAAGTTTGCCGGCAGAAG
CTTCAGAAACCCC

Alignment

ORF - retro_cfam_320 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.67 %
• Parental protein coverage: 91.31 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSIEKIWAREILDSRGNPTVEVDLHTAKGLFRAAVPSGASTGIYEALELRDGDKQRYLGKGVLKAVDHIN
          MSI.KI.AREI.DSR.NPT.EVDL.T.KGLFRAAVPSGASTGIYEAL.LRD.DK.RY.GKGV.KAV.HIN
Retrocopy MSILKIHAREIFDSRRNPTAEVDLYTSKGLFRAAVPSGASTGIYEALKLRDNDKTRYMGKGVSKAVEHIN

Parental  TTIAPALISSGLSVVEQEKLDNLMLELDGTENKSKFGANAILGVSLAVCKAGAAERDLPLYRHIAQLAGN
          .TIAPALIS....VVEQEK.D.LM.E.DGTENKSKFGANAILGVSLA.CKAGA.E....LY.HIA.LAGN
Retrocopy KTIAPALISKKVNVVEQEKIDKLMIEMDGTENKSKFGANAILGVSLAICKAGAVEKGVSLYCHIADLAGN

Parental  SDLILPVPAFNVINGGSHAGNKLAMQEFMILPVGAESFRDAMRLGAEVYHTLKGVIKDKYGKDATNVGDE
          S..ILPVPAFNVINGGSHAGNKLAM.EFMILP.GA..F..AMR.GAEVYH.LK.VIK.KYGKDATNVGDE
Retrocopy SEVILPVPAFNVINGGSHAGNKLAM*EFMILPIGAANFKEAMRIGAEVYHNLKNVIKEKYGKDATNVGDE

Parental  GGFAPNILENSEALELVKEAIDKAGYTEKIVIGMDVAASEFHRDGKYDLDFKSPADPSRYITGDQLGALY
          GGFAPNILEN.EALEL.K.AI.KAGYT.K.VIGMDVAASEF.R.GKYDLDFKSP.DP.RYIT.DQL..LY
Retrocopy GGFAPNILENKEALELLKNAIGKAGYTDKVVIGMDVAASEFFRSGKYDLDFKSPDDPNRYITPDQLADLY

Parental  QDFVRDYPVVSIEDPFDQDDWAAWSKFTANVGIQIVGDDLTVTNPKRIERAVEEKACNCLLLKVNQIGSV
          ..F.RDYPVVSIEDPFDQDDW.AW.KFTA..GIQ.VGDDLTVTNPKRI..AV.EK.CNCLLLKVNQI.SV
Retrocopy KSFIRDYPVVSIEDPFDQDDWEAWQKFTASAGIQVVGDDLTVTNPKRISKAVGEKSCNCLLLKVNQIDSV

Parental  TEAIQACKLAQENGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQLMRIEEELGDE
          TE..QACKLAQ.NGWG.MVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQ..RIEEELG..
Retrocopy TESLQACKLAQSNGWGIMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQILRIEEELGSK

Parental  ARFAGHNFRNP
          A.FAG..FRNP
Retrocopy AKFAGRSFRNP

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	52.08 RPM	336.20 RPM
SRP017611_brain	41.52 RPM	813.37 RPM
SRP017611_kidney	61.68 RPM	13.87 RPM
SRP017611_liver	24.87 RPM	3.92 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_320 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_320 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_320 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014523	1 retrocopy	retro_cfam_320 ,
Canis familiaris	ENSCAFG00000015802	2 retrocopies	retro_cfam_1010, retro_cfam_2134,
Echinops telfairi	ENSETEG00000007582	8 retrocopies	retro_etel_1077, retro_etel_1696, retro_etel_1837, retro_etel_2120, retro_etel_227, retro_etel_286, retro_etel_30, retro_etel_544,
Felis catus	ENSFCAG00000004282	1 retrocopy	retro_fcat_1423,
Microcebus murinus	ENSMICG00000001774	1 retrocopy	retro_mmur_362,