RetrogeneDB ID: retro_etel_169

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_2931:87600..87899(-)
• Located in intron of: ENSETEG00000001669

Retrocopy information

• Ensembl ID: ENSETEG00000001672
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000001939
• Aliases: None
• Description: None

Sequence

>retro_etel_169
AGTCCCTGGAGGTTGCCAGATTCGTGTGGATCACGCGGGCAAGTCTGCCCGGGGGACCCGAGGGGGTGCCTTTGGTGCCC
ATGGGCGTGGTCGCAGCTACTCCAGAGGTGGTGGGGACCAGGGCTATGGGAGCAGCAGGGATGACAGTCGACCAGGAGGA
TACGGATATGGATATGGAAGATCCAGAGACTATAGTGGCAGAAGCCAGGGTGGTTATGACCGCTATTCTGGAGGAAATTA
TAGAGATAATTACGACAACTGAGATGAGGCATGCACATAATGTAGATACACAAGGAATA

Alignment

ORF - retro_etel_169 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.04 %
• Parental protein coverage: 61.73 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SPWM-VARFVWITRASLPGGPEGVPLVPMGVVAATPEVVGTRAMGAAGMTVDLEDTDMDTEDPETIVAEA
          SPW..VARFVWITRASLPGGPEGVPLVPMGVVAATPEVVGTRAMGAAGMTVD.EDTDMD.EDPETIVAEA
Retrocopy SPWR<VARFVWITRASLPGGPEGVPLVPMGVVAATPEVVGTRAMGAAGMTVDQEDTDMDMEDPETIVAEA

Parental  RVVMTAILEEIIEIITTTEMRHAHNVDTQGI
          RVVMTAILEEIIEIITTTEMRHAHNVDTQGI
Retrocopy RVVMTAILEEIIEIITTTEMRHAHNVDTQGI

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_169 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 6 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002320	1 retrocopy	retro_cjac_2655,
Echinops telfairi	ENSETEG00000001939	6 retrocopies	retro_etel_1057, retro_etel_1060, retro_etel_1209, retro_etel_1476, retro_etel_169 , retro_etel_531,
Microcebus murinus	ENSMICG00000014371	5 retrocopies	retro_mmur_1450, retro_mmur_878, retro_mmur_957, retro_mmur_958, retro_mmur_998,
Macaca mulatta	ENSMMUG00000004439	1 retrocopy	retro_mmul_455,
Sorex araneus	ENSSARG00000003340	1 retrocopy	retro_sara_45,
Tupaia belangeri	ENSTBEG00000003499	10 retrocopies	retro_tbel_100, retro_tbel_1589, retro_tbel_1774, retro_tbel_1779, retro_tbel_1869, retro_tbel_2829, retro_tbel_3822, retro_tbel_3999, retro_tbel_4268, retro_tbel_427,