RetrogeneDB ID: retro_etel_2005

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_324019:2455..2800(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CHCHD4
• Ensembl ID: ENSETEG00000000065
• Aliases: None
• Description: coiled-coil-helix-coiled-coil-helix domain containing 4 [Source:HGNC Symbol;Acc:26467]

Sequence

>retro_etel_2005
AGCAGTGCAGAGCTGGAGGCTGAAGACCTCACGGATCCTTACAGGAGCACGGATTGATACTGCCCAAAGGAGACATTAAC
CGGAACTGCCCATGCCTTGCAGGAATGGCCAGCGGCCCCTCTGGTGAGCAGTTCAAGTCCGCCTTCTTCTGCTTCCACTA
CAGCCCTGAGAATGTAGAGCGGCAGACAGTGCAGACCAGTCCCGGACCTTGCAGGAGTGCATGCGGAAATACCCGGACCT
CTATCCCCAGGATGATGACGATGCTGAGGAAAAGAGAAGCCGGAAGTGTTAGAGGAAGTAGCTCCCACTGAGGCTACTGC
AACCCAAGAGGAGGGGGACTCAAGT

Alignment

ORF - retro_etel_2005 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75. %
• Parental protein coverage: 88.64 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SSAELVADDPNDPY-EEHGLILPNGDINWNCPCLGGMASGPCGEQFKSAFSCFHYSTEDV-KGSDCIDQF
          SSAEL.A.D..DPY..EHGLILP.GDIN.NCPCL.GMASGP.GEQFKSAF.CFHYS.E.V....D..DQ.
Retrocopy SSAELEAEDLTDPY<QEHGLILPKGDINRNCPCLAGMASGPSGEQFKSAFFCFHYSPENV<RAADSADQS

Parental  RAMQECMQKYPDLYPQDDDDAEEE-KEKPEVLEEVAPTEAAAAQKEEGSS
          R..QECM.KYPDLYPQDDDDA.EE.KEKPEVLEEVAPTEA.A.Q.E..SS
Retrocopy RTLQECMRKYPDLYPQDDDDA-EE<KEKPEVLEEVAPTEATATQEEGDSS

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_2005 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000065	2 retrocopies	retro_etel_2005 , retro_etel_255,