RetrogeneDB ID: retro_etel_1360

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_253500:5821..6055(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MINOS1
• Ensembl ID: ENSETEG00000010942
• Aliases: None
• Description: mitochondrial inner membrane organizing system 1 [Source:HGNC Symbol;Acc:32068]

Sequence

>retro_etel_1360
ATGTCAGATTCAGAGCTCAGCAGGAAGTGGGACAGGTGCCCTGTTCAGTGTGGTTCTGAACCTAGGTACTAGTATGGATT
GGGAATTATTTCCTCACTTACCTTCTTTAAAAGAAGAATGTGGCCCTTAGCCTTTGGTTCTGGCATGAGATTGGGAATGG
CCTACCCCAACTGTCAGCAGGATTTCCAGGAGCCATATCTTCTTCATAGAAAATATGAGAAAGAGCCAAGACAG

Alignment

ORF - retro_etel_1360 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.25 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSDSELGRKWDRC-LADAVVKIGTG-FGLGIIFSLTVFKRRMWPLAFGSGMGLGMAYSNCQHDFQAPYLL
          MSDSEL.RKWDRC.L...V...GT...GLGII.SLT.FKRRMWPLAFGSGM.LGMAY.NCQ.DFQ.PYLL
Retrocopy MSDSELSRKWDRC>LFSVVLNLGTS<YGLGIISSLTFFKRRMWPLAFGSGMRLGMAYPNCQQDFQEPYLL

Parental  HGKFVKLQEQ
          H.K..K...Q
Retrocopy HRKYEKEPRQ

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_1360 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 12 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006709	1 retrocopy	retro_cjac_2070,
Echinops telfairi	ENSETEG00000010942	5 retrocopies	retro_etel_1360 , retro_etel_1463, retro_etel_171, retro_etel_459, retro_etel_978,
Homo sapiens	ENSG00000173436	3 retrocopies	retro_hsap_1857, retro_hsap_2761, retro_hsap_2948,
Gallus gallus	ENSGALG00000004039	1 retrocopy	retro_ggal_19,
Gorilla gorilla	ENSGGOG00000007347	4 retrocopies	retro_ggor_1920, retro_ggor_2042, retro_ggor_2154, retro_ggor_979,
Macaca mulatta	ENSMMUG00000005855	2 retrocopies	retro_mmul_1268, retro_mmul_1949,
Mus musculus	ENSMUSG00000050608	1 retrocopy	retro_mmus_2357,
Nomascus leucogenys	ENSNLEG00000007867	2 retrocopies	retro_nleu_1297, retro_nleu_665,
Pongo abelii	ENSPPYG00000001788	3 retrocopies	retro_pabe_1513, retro_pabe_2251, retro_pabe_2445,
Pan troglodytes	ENSPTRG00000000269	2 retrocopies	retro_ptro_1868, retro_ptro_2050,
Rattus norvegicus	ENSRNOG00000042696	2 retrocopies	retro_rnor_16, retro_rnor_2460,
Tarsius syrichta	ENSTSYG00000002903	1 retrocopy	retro_tsyr_825,