RetrogeneDB ID: retro_etel_688

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_144840:346..992(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000002062
• Aliases: None
• Description: None

Sequence

>retro_etel_688
GGGCTCTGTGACCTCTGCCCCAGCCTGGAGAAATTTCTATTGGTGTTCTTGGGACACAGGTGTGGGAGTCTGCAGCTTGA
GGACCTGGCGAGCGTAAAACCTGGTACTTAGTCCGCGCCGTTTGCCATCCAGTGCGCATCAGAGCGAGCAAGCCTGCGTG
TCCCTGAACCAGCCAGGCACGGTAGTGGCCTCCGCCTCCCAGAAGGGCACCCTTATTCGTCTTTTTGACACACAGTCCAA
GGAGAAACTGGTAGAACTGCGCCGAGGCGCCGACCCGGCCACCATTTACTGCATCAACTTCAGCCATGACTCCTCCTTCC
TCTGCGCCTCCAGCGATAAGGGCACGGTCCACATCTTTGCTCTCAAGGACACCCTCCTCAACCGCCGCTCAGCGCTGGCT
CGTGTGGGCAAGGTGGAGCCTCTCATTGGGCAGTACGTGGACTCTCAGTGGAGCCTGGCAAGCTTCACGGTGCCTGCAGA
GTCTGCCTGCATCTGCGCCTTTGGACGCAATACTTCCCAGAATGTCAACTCCGTCATTGCCATCTGTGTAGATGGGACGT
TCCACAAATACGTCTTCACTCCGAATGGAAACTGCAACAGGGAGGCTTTTGAGGTGTACCTTGACATCTGTGATGATGAT
GACTTT

Alignment

ORF - retro_etel_688 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.2 %
• Parental protein coverage: 65.95 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GLCDLCPSLEKQLLVFPGHKCGSLQLVDLASTKPGTSSAPFTI-NAHQSDIACVSLNQPGTVVASASQKG
          GLCDLCPSLEK.LLVF.GH.CGSLQL.DLAS.KPGT.SAPF.I..AHQS..ACVSLNQPGTVVASASQKG
Retrocopy GLCDLCPSLEKFLLVFLGHRCGSLQLEDLASVKPGT*SAPFAI>SAHQSEQACVSLNQPGTVVASASQKG

Parental  TLIRLFDTQSKEKLVELRRGTDPATLYCINFSHDSSFLCASSDKGTVHIFALKDTRLNRRSALARVGKVG
          TLIRLFDTQSKEKLVELRRG.DPAT.YCINFSHDSSFLCASSDKGTVHIFALKDT.LNRRSALARVGKV.
Retrocopy TLIRLFDTQSKEKLVELRRGADPATIYCINFSHDSSFLCASSDKGTVHIFALKDTLLNRRSALARVGKVE

Parental  PMIGQYVDSQWSLASFTVPAESACICAFGRNTSKNVNSVIAICVDGTFHKYVFTPDGNCNREAFDVYLDI
          P.IGQYVDSQWSLASFTVPAESACICAFGRNTS.NVNSVIAICVDGTFHKYVFTP.GNCNREAF.VYLDI
Retrocopy PLIGQYVDSQWSLASFTVPAESACICAFGRNTSQNVNSVIAICVDGTFHKYVFTPNGNCNREAFEVYLDI

Parental  CDDDDF
          CDDDDF
Retrocopy CDDDDF

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_688 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000002062	3 retrocopies	retro_etel_1291, retro_etel_688 , retro_etel_712,
Gorilla gorilla	ENSGGOG00000000589	1 retrocopy	retro_ggor_2075,
Macaca mulatta	ENSMMUG00000010620	1 retrocopy	retro_mmul_1916,
Pongo abelii	ENSPPYG00000020333	1 retrocopy	retro_pabe_2481,