RetrogeneDB ID: retro_etel_187

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_3241:70668..71023(+)
• Located in intron of: ENSETEG00000006769

Retrocopy information

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

Parental gene information

• Parental gene symbol: AAMDC
• Ensembl ID: ENSETEG00000006423
• Aliases: None
• Description: adipogenesis associated, Mth938 domain containing [Source:HGNC Symbol;Acc:30205]

Sequence

>retro_etel_187
CCCTCTTTGCCTTCCCTGTCCTGGGGACAAATGAAAGCACATGGCTCGACTAAAACCTATAAGGACGGCAAAGGGTGGCC
AGGGGGCTGTTGGGCTTGGGGCTGAAGAGGAACCAGAACTGAGCATTCCCCTGGTGTGCAGCCTGCAGATGTGGAAGAAG
TTGGCAAGAACGAAGTACAGACCCTTGTGTTTGGCTGAGGGATGAGTGAGACCTTGAAGGTCCCTCCCTCCAGTGGACTA
CCTGGATAAGCCAGGCATCAAAGTGTGGGCCCTACAGATGGAGATGGCTGTGAAGGAGTACAGTGCTTTGGCTGCCCAGG
GAGTCAGGGTGGGAAGTATGTTCCACTCCACCTGC

Alignment

ORF - retro_etel_187 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.98 %
• Parental protein coverage: 97.54 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PEIASLSWGQMKVQGSTKTYKDCKVWPGGSRAWDWRETGTEHSPGVQPADVE-EVAKKGVQTLVIGRG-M
          P...SLSWGQMK..GSTKTYKD.K.WPGG..AW..R.T.TEHSPGVQPADVE...A......L....G..
Retrocopy PSLPSLSWGQMKAHGSTKTYKDGKGWPGGCWAWG*RGTRTEHSPGVQPADVE>KLARTKYRPLCLAEG*V

Parental  SEALKVPPSTVEYLEKQGIHVRALQTEQAVKEYNALAAQGVRVGGVFHSTC
          ......PP..V.YL.K.GI.V.ALQ.E.AVKEY.ALAAQGVRVG..FHSTC
Retrocopy RP*RSLPP--VDYLDKPGIKVWALQMEMAVKEYSALAAQGVRVGSMFHSTC

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_187 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000002128	1 retrocopy	retro_amel_1604,
Callithrix jacchus	ENSCJAG00000014890	1 retrocopy	retro_cjac_165,
Echinops telfairi	ENSETEG00000006423	1 retrocopy	retro_etel_187 ,
Felis catus	ENSFCAG00000007450	1 retrocopy	retro_fcat_8,
Loxodonta africana	ENSLAFG00000000518	1 retrocopy	retro_lafr_784,
Microcebus murinus	ENSMICG00000000300	2 retrocopies	retro_mmur_157, retro_mmur_424,
Mustela putorius furo	ENSMPUG00000015932	1 retrocopy	retro_mputfur_1468,
Rattus norvegicus	ENSRNOG00000012584	1 retrocopy	retro_rnor_2097,
Tarsius syrichta	ENSTSYG00000002262	1 retrocopy	retro_tsyr_1886,
Tursiops truncatus	ENSTTRG00000007111	1 retrocopy	retro_ttru_406,