RetrogeneDB ID: retro_etel_1758

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_292373:2839..3244(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MED10
• Ensembl ID: ENSETEG00000000027
• Aliases: None
• Description: mediator complex subunit 10 [Source:HGNC Symbol;Acc:28760]

Sequence

>retro_etel_1758
ATGGCGGAGAAGTTCGATCACCTGGCGGAGCACCTGGAGAAGTTCGTGGAGAACATCCGGCAGCTCGGCGTCATGGTCAG
CGACTTCCAGCCCAGCAGCCAGGCTGGGCTCAACCAGAAACTGAATTTTATCATCACTGGCTTACAGGACATCGATAAGT
GTAGACAGCAGCTTTGTGACATTATGGTGCCGCTAGAAGTGTTTGAGTACATTGATCAAGGTCGGAACCCCCAGCTCTAC
ACCAAGGAGTGCCTGGAGGGGGCGCTGGCCAAGAACGAGCAGGTGAAAGGCAAGATGGACACCATGAAGAAATGTAAAAT
TCTGTTGATTCAAGAACTTCCCAACGTGTTCTCAGAAGACATGGCCATGTATCGGAGCACCCGAGGGGAGGACCATCCCC
CTTCC

Alignment

ORF - retro_etel_1758 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.63 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAEKFDHLEEHLEKFVENIRQLGIIVSDFQPSSQAGLNQKLNFIVTGLQDIDKCRQQLHDIMVPLEVFEY
          MAEKFDHL.EHLEKFVENIRQLG..VSDFQPSSQAGLNQKLNFI.TGLQDIDKCRQQL.DIMVPLEVFEY
Retrocopy MAEKFDHLAEHLEKFVENIRQLGVMVSDFQPSSQAGLNQKLNFIITGLQDIDKCRQQLCDIMVPLEVFEY

Parental  IDQGRNPQLYTKECLERALAKNEQVRGKMDTMKKFKSLLIQELSKVFPEDMAKYRSIRGEDHPPS
          IDQGRNPQLYTKECLE.ALAKNEQV.GKMDTMKK.K.LLIQEL..VF.EDMA.YRS.RGEDHPPS
Retrocopy IDQGRNPQLYTKECLEGALAKNEQVKGKMDTMKKCKILLIQELPNVFSEDMAMYRSTRGEDHPPS

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_1758 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006767	1 retrocopy	retro_amel_1034,
Canis familiaris	ENSCAFG00000010346	1 retrocopy	retro_cfam_721,
Dasypus novemcinctus	ENSDNOG00000004579	1 retrocopy	retro_dnov_1286,
Equus caballus	ENSECAG00000023738	1 retrocopy	retro_ecab_796,
Echinops telfairi	ENSETEG00000000027	1 retrocopy	retro_etel_1758 ,
Monodelphis domestica	ENSMODG00000002025	1 retrocopy	retro_mdom_399,
Otolemur garnettii	ENSOGAG00000005988	1 retrocopy	retro_ogar_1830,
Ochotona princeps	ENSOPRG00000015506	1 retrocopy	retro_opri_834,
Tupaia belangeri	ENSTBEG00000014579	2 retrocopies	retro_tbel_1647, retro_tbel_4561,
Tarsius syrichta	ENSTSYG00000002763	1 retrocopy	retro_tsyr_792,