RetrogeneDB ID: retro_etel_328

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_5390:290503..290974(+)
• Located in intron of: ENSETEG00000016909

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM255B
• Ensembl ID: ENSETEG00000007263
• Aliases: None
• Description: transmembrane protein 255B [Source:HGNC Symbol;Acc:28297]

Sequence

>retro_etel_328
GAACCGAGGCCACTCACCACCAGAAGATGCCAATTTTACTCCAGCGGCATAGGATATTTATATGACATCTGTCTGACAGA
GGTCACCTGCCACTCCTTGAATGGCCCCTGCCAGCTGAAGGTGAAGAGCAACACCTGCTACTGCTGTGACCTGGACAACT
GCGAAAACACCGAGCACTCCACGAGCTACTACGAGTTCGTTGGCGTGAGCGGCTGCCAGGATGTGGTCCACCTCTACCGG
CTGCTGTGGACGTCGACGGTGCTGAACATCATCGGCCTGTACCTGGGCATTGTCACGGCTGCAGTCCTGGGGGCCTTCAA
GGACATGGTCCCTCTGTCCTCATTGGCCTATGGCTCCTCCTCGCTGCCTCAGATCCTCTACAATCCCGCTCAGCAGATCC
TGGCCTACACAGGCTTCTGCCCATCGCCAGCCTCCGTGCCCACCTGCTCGCCCTACCCTTTGCCTCTTCAG

Alignment

ORF - retro_etel_328 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.63 %
• Parental protein coverage: 61.57 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EPRPLTTGRCQFYSSGIGYLYDIYQTEVTCHSLTGHCQLKVKSNTCYCCDLYHCENTEHSTSYYEFVGVS
          EPRPLTT.RCQFYSSGIGYLYDI..TEVTCHSL.G.CQLKVKSNTCYCCDL..CENTEHSTSYYEFVGVS
Retrocopy EPRPLTTRRCQFYSSGIGYLYDICLTEVTCHSLNGPCQLKVKSNTCYCCDLDNCENTEHSTSYYEFVGVS

Parental  GCQDVVHLYRLLWTSTVLNIIGLFLGIVTAAVLGAFKDMVPLSSLAYGSSSPPQILYNPAQQILAYTGFR
          GCQDVVHLYRLLWTSTVLNIIGL.LGIVTAAVLGAFKDMVPLSSLAYGSSS.PQILYNPAQQILAYTGF.
Retrocopy GCQDVVHLYRLLWTSTVLNIIGLYLGIVTAAVLGAFKDMVPLSSLAYGSSSLPQILYNPAQQILAYTGFC

Parental  PSPASVPTCSPYPLPLQ
          PSPASVPTCSPYPLPLQ
Retrocopy PSPASVPTCSPYPLPLQ

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_328 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000007263	1 retrocopy	retro_etel_328 ,