RetrogeneDB ID: retro_etel_517

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_8530:111368..111911(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEPT7
• Ensembl ID: ENSETEG00000015624
• Aliases: None
• Description: septin 7 [Source:HGNC Symbol;Acc:1717]

Sequence

>retro_etel_517
GTGGAACAATCCAAAGTTTTAATCAAAGAAGGTGGAGTGCAGTTACTGCTCACAATAGTTGATACTCCGGGATTTGGAGA
TGCAGTGGATAATAGTAATTGCTGGCAGCCTGTTATCGATTACATTGATAGTAAGTTTGAGGACTACCTAAATGCAGAAT
CTCGAGTGAATAGATGACAGATGCCTGACAACAGAGTACAGTGTTGTTTATACTTCATTGCTCCTTCAGGACATGGACTT
AAACCACTGGATATTGAGTTTATGAAGCGCTTACATGAAAAAGTGAATATCATCCCACTTATTGCCAAAGCAGACACACG
CACACAAGAGGAATGCCAACAGTTTAAAAAACAGATAATGAAAGAAATCCAAGAGCACAAAATTAAAATATATGAATTTC
CAGAAACAGATGATGAAGAAGAAAATAAGCTTGTTAAAAAGATAAAGGACCGTTTACCTCTTGCTGTGGTAGGTAGTAAT
ACTATCATTGAAGTTAATGGCAAAAGGGTCAGAGGAAGGCAGTATCCTTGGGGTGTTGCTGAA

Alignment

ORF - retro_etel_517 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.34 %
• Parental protein coverage: 66.06 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCL
          VEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNR.QMPDNRVQCCL
Retrocopy VEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNR*QMPDNRVQCCL

Parental  YFIAPSGHGLKPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEE
          YFIAPSGHGLKPLDIEFMKRLHEKVNIIPLIAKADT.T.EECQQFKKQIMKEIQEHKIKIYEFPETDDEE
Retrocopy YFIAPSGHGLKPLDIEFMKRLHEKVNIIPLIAKADTRTQEECQQFKKQIMKEIQEHKIKIYEFPETDDEE

Parental  ENKLVKKIKDRLPLAVVGSNTIIEVNGKRVRGRQYPWGVAE
          ENKLVKKIKDRLPLAVVGSNTIIEVNGKRVRGRQYPWGVAE
Retrocopy ENKLVKKIKDRLPLAVVGSNTIIEVNGKRVRGRQYPWGVAE

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_517 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 12 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012276	2 retrocopies	retro_cjac_1259, retro_cjac_3809,
Echinops telfairi	ENSETEG00000015624	3 retrocopies	retro_etel_1263, retro_etel_282, retro_etel_517 ,
Homo sapiens	ENSG00000122545	2 retrocopies	retro_hsap_3810, retro_hsap_4202,
Gorilla gorilla	ENSGGOG00000001175	1 retrocopy	retro_ggor_2816,
Monodelphis domestica	ENSMODG00000021167	1 retrocopy	retro_mdom_1672,
Nomascus leucogenys	ENSNLEG00000001673	1 retrocopy	retro_nleu_2152,
Otolemur garnettii	ENSOGAG00000006015	1 retrocopy	retro_ogar_1193,
Pongo abelii	ENSPPYG00000017639	1 retrocopy	retro_pabe_3438,
Pan troglodytes	ENSPTRG00000019080	2 retrocopies	retro_ptro_2585, retro_ptro_2853,
Rattus norvegicus	ENSRNOG00000006545	9 retrocopies	retro_rnor_1424, retro_rnor_1425, retro_rnor_1426, retro_rnor_1427, retro_rnor_1428, retro_rnor_1431, retro_rnor_1445, retro_rnor_1446, retro_rnor_821,
Sarcophilus harrisii	ENSSHAG00000003788	1 retrocopy	retro_shar_258,
Ictidomys tridecemlineatus	ENSSTOG00000021378	3 retrocopies	retro_itri_1332, retro_itri_1736, retro_itri_1771,