RetrogeneDB ID: retro_etel_496

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_8232:333983..334712(-)
• Located in intron of: ENSETEG00000018633

Retrocopy information

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

Parental gene information

• Parental gene symbol: TUBG2
• Ensembl ID: ENSETEG00000008542
• Aliases: None
• Description: tubulin, gamma 2 [Source:HGNC Symbol;Acc:12419]

Sequence

>retro_etel_496
GTGGTGCTGGACAACACGGCCCTGAACCGCATCGCCACCGACCGCCTGCACATTCAGAACCCATCCTTCTCCCAGATCAA
CCAGCTGGTGTCCACCATCATGTCGGCCAGCACCACCACCCTGCGCTATCCCGGCTATATGAACAACGACCTCATCGGCC
TCATCGCCTCGCTCATCCCCACACCGAGGCTGCACTTCCTCATGACCGGCTACACCCCCCTGACCACCGACCAGTCCGTG
GCCAGTGTGAGGAAGACCACAGTCCTGGATGTCATGAGGCGGCTGTTGCAGCCCAAGAACGTGATGGTGTCCACAGGCCG
GGACCGCCAGACCAACCACTGCTACATCGCCATCCTCAACATCATCCAGGGCGAGGTGGACCCCACCCAGGTGCACAAGA
GCCTGCAGAGGATCCGGGAACGCAAGTTGGCCAACTTCATCCCCTGGGGCCCGGCCAGCATCCAGGTGGCCCTGTCTCGG
AAGTCTCCTTACCTGCCCTCAGCCCACCGGGTCAGCGGGCTTATGATGGCCAACCACACCAGCATCTCCTCGCTCTTCGA
GCGGACCTGCCGCCAGTACGACAAGCTGCGGAAGCGGGAGGCCTTCCTGGAGCAGTTCCGCAAGGAGGACATCTTCAAGG
AGAACTTCGACGAGCTGGACACGTCCCGGGAGGTGGTGCAGGAGCTCATCGACGAGTACCACGCGGCCACGCGGCCGGAC
TACATCTCC

Alignment

ORF - retro_etel_496 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.42 %
• Parental protein coverage: 53.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VVLDNTALNRIATDRLHIQNPSFSQINQLVSTIMSASTTTLRYPGYMNNDLIGLIASLIPTPRLHFLMTG
          VVLDNTALNRIATDRLHIQNPSFSQINQLVSTIMSASTTTLRYPGYMNNDLIGLIASLIPTPRLHFLMTG
Retrocopy VVLDNTALNRIATDRLHIQNPSFSQINQLVSTIMSASTTTLRYPGYMNNDLIGLIASLIPTPRLHFLMTG

Parental  YTPLTTDQSVASVRKTTVLDVMRRLLQPKNVMVSTGRDRQTNHCYIAILNIIQGEVDPTQLYESLQRV--
          YTPLTTDQSVASVRKTTVLDVMRRLLQPKNVMVSTGRDRQTNHCYIAILNIIQGEVDPTQ...SLQR...
Retrocopy YTPLTTDQSVASVRKTTVLDVMRRLLQPKNVMVSTGRDRQTNHCYIAILNIIQGEVDPTQVHKSLQRIRE

Parental  CYLAKFIPGRPASIQVALSRKSPYLPSAHRVSGLMMANHTSISSLLESSCQQYDKLRKREAFLEQFRKED
          ..LA.FIP..PASIQVALSRKSPYLPSAHRVSGLMMANHTSISSL.E..C.QYDKLRKREAFLEQFRKED
Retrocopy RKLANFIPWGPASIQVALSRKSPYLPSAHRVSGLMMANHTSISSLFERTCRQYDKLRKREAFLEQFRKED

Parental  IFKENFDELDTSRKVVQELIDEYHAATRPDYIS
          IFKENFDELDTSR.VVQELIDEYHAATRPDYIS
Retrocopy IFKENFDELDTSREVVQELIDEYHAATRPDYIS

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_496 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004907	1 retrocopy	retro_cjac_4142,
Echinops telfairi	ENSETEG00000008542	1 retrocopy	retro_etel_496 ,
Homo sapiens	ENSG00000131462	1 retrocopy	retro_hsap_3725,
Gorilla gorilla	ENSGGOG00000010899	1 retrocopy	retro_ggor_2515,
Nomascus leucogenys	ENSNLEG00000011686	1 retrocopy	retro_nleu_71,
Pongo abelii	ENSPPYG00000008384	1 retrocopy	retro_pabe_3132,
Pan troglodytes	ENSPTRG00000009211	1 retrocopy	retro_ptro_2520,
Rattus norvegicus	ENSRNOG00000020213	2 retrocopies	retro_rnor_2070, retro_rnor_2072,
Tupaia belangeri	ENSTBEG00000015835	3 retrocopies	retro_tbel_188, retro_tbel_3516, retro_tbel_955,