RetrogeneDB ID: retro_etel_686

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_144534:519..818(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000004237
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000011633
• Aliases: None
• Description: None

Sequence

>retro_etel_686
CAGGTCATCAGGTTGTTTGCAAGAAACAAACAGGCCGGCATTGGACACAGTCAGCAGAGATGGACGAAGATCTGATGGTG
GGAAACCTGGAAAGGGACCTGTACACTCAACAGAAAGTACGCTGAACTAACAGCTGTCAGGAAACGTGGAGAGCATCTGA
CTGCTGATGATGAGACCTTCTTGTCTGTAAAGCAGGCGCTATTCTAATGCAGGCGCTTTCTCAGTTTGAGAAAGACTCTC
TAGACCCAGACTCTGGAGACAATGTCCTTGCTTTGGCAAGGTTTGACGTTGATAAAACA

Alignment

ORF - retro_etel_686 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.08 %
• Parental protein coverage: 50.53 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EVIRLLA-KKQPGQLRSRLAEMDRDLMVGKLEGGLYTQQKVE-ILTALRKLGEKLTADDEGFLS-ANAGA
          .VIRL.A.KKQ.G......AEMD.DLMVG.LE..LYTQQKV...LTA.RK.GE.LTADDE.FLS...AGA
Retrocopy QVIRLFA<KKQTGRHWTQSAEMDEDLMVGNLERDLYTQQKVR>ELTAVRKRGEHLTADDETFLS<CKAGA

Parental  VL----SQFERVSTDLGSGDKVLALASFDVEKT
          .L....SQFE..S.D..SGD.VLALA.FDV.KT
Retrocopy ILMQALSQFEKDSLDPDSGDNVLALARFDVDKT

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_686 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000004171	2 retrocopies	retro_amel_1330, retro_amel_1820,
Dasypus novemcinctus	ENSDNOG00000019688	1 retrocopy	retro_dnov_2506,
Echinops telfairi	ENSETEG00000011633	1 retrocopy	retro_etel_686 ,
Felis catus	ENSFCAG00000023559	1 retrocopy	retro_fcat_1666,
Mustela putorius furo	ENSMPUG00000016545	2 retrocopies	retro_mputfur_336, retro_mputfur_524,
Otolemur garnettii	ENSOGAG00000001446	1 retrocopy	retro_ogar_1706,