RetrogeneDB ID: retro_etel_892

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_181069:538..843(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000014055
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: FGF4
• Ensembl ID: ENSETEG00000010247
• Aliases: None
• Description: fibroblast growth factor 4 [Source:HGNC Symbol;Acc:3682]

Sequence

>retro_etel_892
GGTGGGACCAACAGCGTGCACACTGACACCAGTCACAGTCTGCTGGAACTCTCGCCAGTGGAACACGGCATTGTGAGCAT
CTTCAGTGTCTCCAGTTGGTTATTTGTGGCCAGAAAAGACAAGAACAAGCTCTCTGGCTCTCCTTTCTTCACAGAGGATT
GTATGTTAAGGAGATTTTCCTCCCCAACAACTGCGATGCCTATGAATCCTTCGAATATCCATGCATGTTCAACATCCTGA
ATAAGACCGGCAGGACCAAGAAGGGGAACCGGATGTCACCAAGCATGAAGTTCACTTACTTTATC

Alignment

ORF - retro_etel_892 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.17 %
• Parental protein coverage: 52.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GSIGGVHADTADSLLELSPVERGVVSIFGVSSRFFVAMSSRGKLYGSPFFSDECMF-KEILLPNNYNAYE
          G....VH.DT..SLLELSPVE.G.VSIF.VSS..FVA.....KL.GSPFF...CM..KEI.LPNN..AYE
Retrocopy GGTNSVHTDTSHSLLELSPVEHGIVSIFSVSSWLFVARKDKNKLSGSPFFTEDCML<KEIFLPNNCDAYE

Parental  SFKSPGLFIALSKNGGTKKGNRVSPTMKVTHFL
          SF..P..F..L.K.G.TKKGNR.SP.MK.T.F.
Retrocopy SFEYPCMFNILNKTGRTKKGNRMSPSMKFTYFI

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_892 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000010247	1 retrocopy	retro_etel_892 ,
Ictidomys tridecemlineatus	ENSSTOG00000019792	1 retrocopy	retro_itri_45,