RetrogeneDB ID: retro_etel_656

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_133550:251..876(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000016097
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ASNA1
• Ensembl ID: ENSETEG00000005010
• Aliases: None
• Description: arsA arsenite transporter, ATP-binding, homolog 1 (bacterial) [Source:HGNC Symbol;Acc:752]

Sequence

>retro_etel_656
ATGGCGGCAGGGGTGGCTGGGTGGGGGCTTGAGGCCGAGGAGTTCGAGGATGCCCCTGATGTGGAACCGCTGGAGCCCAC
GCTGAGCAATATCATCGAGCAGCGCAGCCTTAAGTGGATCTTCGTTGGGGGCAAGAGCGGCGTGGGCAAGACAACCTGTA
GCCGCAGCCTGGCAGTCCAGTTATCCAAGGGAGGGGAGAGTGTTCTGATCATCCCCACAGACCCCGCCCACAACATCTCC
GATGTTCTTGACCAGAAGTTTTTCCAAGGTGCCTACCAAGGTCAAAGGCTATGACAACCTCTTCGCCACGGAAATTGACC
CCAACCTTGGTGTGGCCGAGCTGCCCGACGAGTTCTTTGAAGAGGACAGCATGCTGAGCATGGGCAAGAAGATGATGCAG
GAGGCCATGAGCTCCTTCCCCGACATCGATGAGGCCATGAGCTTTGCCGAGGTCATGAGGTTGGTGAAAGGCATGAACTT
CTCGGTGGTGGTGTTTGACACGGCCCCCACAGGCCACACATTGAGGCTGCTCAACTTCCCCACCATCGTCGAGAGGGGCC
TGGGCCGCCTCATGCAGATCAAGAACCAGATCAGCCCCTTTATCTCACAGATGTGCAACATGCTG

Alignment

ORF - retro_etel_656 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.39 %
• Parental protein coverage: 65.82 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAAGVAGWGVEAEEFEDAPDVEPLEPTLSNIIEQRSLKWIFVGGKGGVGKTTCSCSLAVQLSKGRESVLI
          MAAGVAGWG.EAEEFEDAPDVEPLEPTLSNIIEQRSLKWIFVGGK.GVGKTTCS.SLAVQLSKG.ESVLI
Retrocopy MAAGVAGWGLEAEEFEDAPDVEPLEPTLSNIIEQRSLKWIFVGGKSGVGKTTCSRSLAVQLSKGGESVLI

Parental  ISTDPAHNISDAFDQKF-SKVPTKVKGYDNLFAMEIDPSLGVAELPDEFFEEDNMLSMGKKMMQEAMSAF
          I.TDPAHNISD..DQKF.SKVPTKVKGYDNLFA.EIDP.LGVAELPDEFFEED.MLSMGKKMMQEAMS.F
Retrocopy IPTDPAHNISDVLDQKF>SKVPTKVKGYDNLFATEIDPNLGVAELPDEFFEEDSMLSMGKKMMQEAMSSF

Parental  PGIDEAMSYAEVMRLVKGMNFSVVVFDTAPTGHTLRLLNFPTIVERGLGRLMQIKNQISPFISQVSGPL
          P.IDEAMS.AEVMRLVKGMNFSVVVFDTAPTGHTLRLLNFPTIVERGLGRLMQIKNQISPFISQ....L
Retrocopy PDIDEAMSFAEVMRLVKGMNFSVVVFDTAPTGHTLRLLNFPTIVERGLGRLMQIKNQISPFISQMCNML

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_656 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000005010	1 retrocopy	retro_etel_656 ,
Nomascus leucogenys	ENSNLEG00000010460	1 retrocopy	retro_nleu_2842,
Otolemur garnettii	ENSOGAG00000012205	1 retrocopy	retro_ogar_931,
Pan troglodytes	ENSPTRG00000010537	1 retrocopy	retro_ptro_604,