RetrogeneDB ID: retro_etel_643

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_124543:485..1070(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KCTD2
• Ensembl ID: ENSETEG00000013965
• Aliases: None
• Description: potassium channel tetramerization domain containing 2 [Source:HGNC Symbol;Acc:21294]

Sequence

>retro_etel_643
GGAGCCGTATCCAAGTGAGTTCGGCTCAACGTCGGCGGCACGACTTCCTTACTACTCGAGCAGACGCTGTGCCGGGACCC
CAAGTCCTTCCTGTACCGCCTGTGCCAGGCGGACCCCGACCTGGACTCGGACAAGGATGAGACCGGGGCCTACCTGATAG
ACAGAGACCCCACCTACTTCGGGCCTGTCCTCAACTACCTGCGGCATGGCAAGCTGGTGACCAACAAGGACCTTGCTGAG
GAAGGGGTGCTGGAGGAGGCCGAGTTTTACAACATCACCTCGCTCATCAAGCTGGTCAAGGAGAAGATTCGAGAGCGAGA
CAGCAAGACCACACAGGCCCCCGTGAAGCACGTGTACCGGGTGCTGCAGTGCCAAGAGGAGGAGCTGACGCAGATGGTGT
CCACCATGTCCGACGGCTGGAAGTTCGAGCAGCTGGTCAGCATCGGCTCCTCTTACAACTATGGGAGCGAGGACCAGGCC
GAGTTCCTGTGCGTGGTCTCCAAGGAGCTGCACAACGCCCCCCACGGCACAGCCAGCGAACCCAGCGAGAAGGCCAAGAT
TCTGCAGGAGCGGGGCTCTCGGATG

Alignment

ORF - retro_etel_643 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.57 %
• Parental protein coverage: 75.97 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGAARWVRLNVGGTYFVTTRQTLGREPKSFLCRLCCQEDPELDSDKDETGAYLIDRDPTYFGPVLDYLRH
          G.....VRLNVGGT......QTL.R.PKSFL.RLC.Q.DP.LDSDKDETGAYLIDRDPTYFGPVL.YLRH
Retrocopy GAVSK*VRLNVGGTTSLLLEQTLCRDPKSFLYRLC-QADPDLDSDKDETGAYLIDRDPTYFGPVLNYLRH

Parental  GKLIINKELAEEGVLEEAEFYNIASLVRLVKERIRDNENRTSQGPVKHVYRVLQCQEEELTQMVSTMSDG
          GKL..NK.LAEEGVLEEAEFYNI.SL..LVKE.IR.....T.Q.PVKHVYRVLQCQEEELTQMVSTMSDG
Retrocopy GKLVTNKDLAEEGVLEEAEFYNITSLIKLVKEKIRERDSKTTQAPVKHVYRVLQCQEEELTQMVSTMSDG

Parental  WKFEQLISIGSSYNYGNEDQAEFLCVVSRELNNSTNGIVIEPSEKAKILQERGSRM
          WKFEQL.SIGSSYNYG.EDQAEFLCVVS.EL.N...G...EPSEKAKILQERGSRM
Retrocopy WKFEQLVSIGSSYNYGSEDQAEFLCVVSKELHNAPHGTASEPSEKAKILQERGSRM

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_643 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.

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000021231	1 retrocopy	retro_btau_927,
Callithrix jacchus	ENSCJAG00000014605	1 retrocopy	retro_cjac_2781,
Echinops telfairi	ENSETEG00000013965	1 retrocopy	retro_etel_643 ,
Pongo abelii	ENSPPYG00000008616	1 retrocopy	retro_pabe_2093,
Pan troglodytes	ENSPTRG00000009629	1 retrocopy	retro_ptro_1685,