RetrogeneDB ID: retro_etel_2100

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_56004:941..1236(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000017968
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TMEM160
• Ensembl ID: ENSETEG00000017997
• Aliases: None
• Description: transmembrane protein 160 [Source:HGNC Symbol;Acc:26042]

Sequence

>retro_etel_2100
CCCTTGGCCCCCGCGCACAGCCCTCGCGCCCGGGTTTCGCCGCCCGCAGTGTCCGAACCGGATCGTGCGGACGCCTGGCT
CCCCCGGAAGGCGCAGGAGACAGCCTTCCTCTGGTGGTTCCGAAATGGCCTCCTGGTGTCCGGGGTTGGGTCATCCCCTT
CATGCACCGTGACCTGGGTCGGAAAGCCGCCTACGGCTTCTTCTTGCCGGGCGGTCTGGGCGTGGTCTGGGGCAGCGCTT
CTTACGCCGTGACTTGGCTGCCCTACGGGGGCTCATGCAGCTCTCGTTAGGGGGT

Alignment

ORF - retro_etel_2100 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.22 %
• Parental protein coverage: 69.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PFVPEHSPRAGVSPPPVSELDRADAWLLRKAHETAFLSWFRNGLLASGIG-VISFMQSDMGREAAYGFFL
          P..P.HSPRA.VSPP.VSE.DRADAWL.RKA.ETAFL.WFRNGLL.SG.G.VI.FM..D.GR.AAYGFFL
Retrocopy PLAPAHSPRARVSPPAVSEPDRADAWLPRKAQETAFLWWFRNGLLVSGVG<VIPFMHRDLGRKAAYGFFL

Parental  LGGLCVVWGSASYAV-GLAALRGPMQLSLGG
          .GGL.VVWGSASYAV..LAALRG.MQLSLGG
Retrocopy PGGLGVVWGSASYAV<DLAALRGLMQLSLGG

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_2100 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000017997	1 retrocopy	retro_etel_2100 ,
Homo sapiens	ENSG00000130748	1 retrocopy	retro_hsap_1828,
Gorilla gorilla	ENSGGOG00000013410	1 retrocopy	retro_ggor_2165,
Oryctolagus cuniculus	ENSOCUG00000023097	1 retrocopy	retro_ocun_1750,
Pongo abelii	ENSPPYG00000010166	1 retrocopy	retro_pabe_1498,
Pan troglodytes	ENSPTRG00000011200	1 retrocopy	retro_ptro_1165,
Rattus norvegicus	ENSRNOG00000015304	1 retrocopy	retro_rnor_1176,