RetrogeneDB ID: retro_etel_1023

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_201401:585..959(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000003712
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000005613
• Aliases: None
• Description: None

Sequence

>retro_etel_1023
CTGCAGATCAGGCGAGGAAGCCTGTTGCCGGAAGCATTCCATACGGAGTCCTTGGCTCTGGACATGTGCAGGTACAAGAA
GTCCTTAGAAGACAGCCTTCAGAGGGCAGATCTTGTCATCAATCACGCAGGTGCAGGAAGCTGTTTGGAGACTCTGGAGA
AAGGAAAGCCACTTATAGTTATTATAAATGAAAAGTTGATGAACAATCATCAGCTGGAATTGGCAAAGCAGCTGCACAAA
GAGAGACATCTCTTCTACTGTACCTGCAGCATGCTTCCTGGGCTGTTGCAGTCAATGGACTTATCACCACTGAAATGTTT
CCCCCTGGGCAGCCAGAAACATTTTCTGCATTTTTGGATAAAGTTGATGGATTA

Alignment

ORF - retro_etel_1023 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.71 %
• Parental protein coverage: 75.76 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LQVGRGSLVPEALSTESLALEVYRYKKSLEDDLRRADLVISHAGAGSCLETLEKGKPLIVVINEKLMNNH
          LQ..RGSL.PEA..TESLAL...RYKKSLED.L.RADLVI.HAGAGSCLETLEKGKPLIV.INEKLMNNH
Retrocopy LQIRRGSLLPEAFHTESLALDMCRYKKSLEDSLQRADLVINHAGAGSCLETLEKGKPLIVIINEKLMNNH

Parental  QLELAKQLHKEGHLFYCTCSTLPGLLQSMDLSTLKC-FPPGQPEKFSAFLDKVVGL
          QLELAKQLHKE.HLFYCTCS.LPGLLQSMDLS.LKC.FPPGQPE.FSAFLDKV.GL
Retrocopy QLELAKQLHKERHLFYCTCSMLPGLLQSMDLSPLKC<FPPGQPETFSAFLDKVDGL

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_1023 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000005613	1 retrocopy	retro_etel_1023 ,
Monodelphis domestica	ENSMODG00000005175	1 retrocopy	retro_mdom_1156,
Mus musculus	ENSMUSG00000041718	1 retrocopy	retro_mmus_256,
Tupaia belangeri	ENSTBEG00000010726	2 retrocopies	retro_tbel_117, retro_tbel_6,