RetrogeneDB ID: retro_etel_2185

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_94005:1750..2290(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000013814
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: GKN2
• Ensembl ID: ENSETEG00000012576
• Aliases: None
• Description: gastrokine 2 [Source:HGNC Symbol;Acc:24588]

Sequence

>retro_etel_2185
GTGACATTTCTGGTGGTGCTGGTCACCTTTGGGGCACAGGCTCATGGATATGAGGTATACAGCATCATCAGTCCACACAA
CAATGGTGGCAATGTTCAGTAGACCATGACCATTGACAATGAAAAAAGCACCACCATCATCAACATCCATGCAGGCTCGT
GTTCCTCCACCAGGATTTCTGACTACAAACATGGCTACATTGCTTCCAGGCTGCTGTCCTGAAGGGCCTGCTACATCCTA
AAAATGAACCATACAGCCATTCCTGCTTTGGACCAACTCAAATGGTACATCTACGAGAGGAAGTCTCTGAACACCATGTT
CTACAACAAATACACATGGGTCAAATGCAATCCTCTGGAGTCTCTGATCACAGATGTGAACTGGTTCCTGTTTGGGGCCC
CCATTGAGCATCTCTGAAAACGCATTCCCTTATACAAGGGGGAGGTGATTGAAAAGACACATGAAGTTGGTACTGGAGGC
TGCGCCAAGGCCAGGCTCCTGGGCATCTTGGGAATTTCCATCTGCGTAGATATTCATGTG

Alignment

ORF - retro_etel_2185 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.33 %
• Parental protein coverage: 97.83 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VTFLVVLVTLGTQAHGNEVYNIISALDNGGNIQETMTIDNEKNTAIINVHAGSCSSTTIFDYKHGYIASR
          VTFLVVLVT.G.QAHG.EVY.IIS...NGGN.Q.TMTIDNEK.T.IIN.HAGSCSST.I.DYKHGYIASR
Retrocopy VTFLVVLVTFGAQAHGYEVYSIISPHNNGGNVQ*TMTIDNEKSTTIINIHAGSCSSTRISDYKHGYIASR

Parental  LLSRRACYILKMNHKAIPALDQLKRYIYERKALNTMFSNKYTWVKYNPLESLITDVNWFLFGSPIEQLCK
          LLS.RACYILKMNH.AIPALDQLK.YIYERK.LNTMF.NKYTWVK.NPLESLITDVNWFLFG.PIE.L.K
Retrocopy LLS*RACYILKMNHTAIPALDQLKWYIYERKSLNTMFYNKYTWVKCNPLESLITDVNWFLFGAPIEHL*K

Parental  HIPLYKGEVVEKTQEVGAGGCAKAGLLGILGISICADVHV
          .IPLYKGEV.EKT.EVG.GGCAKA.LLGILGISIC.D.HV
Retrocopy RIPLYKGEVIEKTHEVGTGGCAKARLLGILGISICVDIHV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq

Echinops telfairi was not studied using ChIP-Seq data.

EST

Echinops telfairi was not studied using EST data.

TSS

Echinops telfairi was not studied using FANTOM5 data.

Lab

retro_etel_2185 was not experimentally validated.

Homology

Retrocopy orthology:

Echinops telfairi does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000012576	1 retrocopy	retro_etel_2185 ,