RetrogeneDB ID: retro_etel_733

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_156508:329..1335(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ESRRA
• Ensembl ID: ENSETEG00000000262
• Aliases: None
• Description: estrogen-related receptor alpha [Source:HGNC Symbol;Acc:3471]

Sequence

>retro_etel_733
GTGCCCAGCGCCATGTCCAGCCAGGTGGTGGGTATGGAGCCTCTCTACATCAAGGCGGAACCAGCCAGCTCCAACAGCCC
CAAGGGCTCCTCGGAGACTGAGCCTGAGCCCCCAGTGGCCCTAGCCCCTGGGCCAGTTCCCACCCGATGCCTCCCATGCC
ACAAGAGGAGGGTGGAGAGGGGGCCGGGCCTGGGGAGCAGGGAGGTGGGAAGCTGGTGCTCAGCTCCATGCCCAAACGCC
TTTGCCTGGTCTGCGGGGACGTGGCTTCCGGCTACCATTATGACATGGCGTCCTGTGAGGCTTGCAAAGCCTTCTTTAAG
AGAATCATCCAGGGGAGCATCGAGTACAGCTGTCCGGCCTCCAACAAGTGCGAGATCACCAAGAGGAGATGCAAGGCTTG
CCAGCCCTGCTGCTTCACCAAGTGCCTGCTGTGGGCATGCTCAAGGAGGGGGTTCATCTGGACTGTGTCAAGGCGGACGA
GAGGTGGACTCGCTGCCTTTCTCGGGCCCCTTTCCCACCAGTCCCTGGCAGTCGCGGGGGTTTGTGGGTAGGGGGGCCCC
CGGATGACCGCTCCTGTGAACGCCCTGGTCTCTCACTTGCTGGTGGTTGAACCAGAGAAGCTCTGTGCCATGCCAGACCT
GGCGGGCCCTGATGAACACCTGCCAGCCGTGGCCACCCTCTGTGACCTCTTTGACCGAGAGATCGTGGTCACTATCAGCT
GGGCCAAGAGCATCCCAGGCTTCTGGTTGCTGTCACTGTCCGACCAGATGTCAGTGATACAGAGTGTGTGGATGGAGGTG
CTTGTGCTGGGGGTGGCCCATCACTCGCTGCCCCTGCAGGACGAGCTGGCCTTCACCGAGGACGTGGTCCTGGATGAAGA
GGGGACACGAGCAGCTGGCTTGGGGAGCGAGGAGCTGCCCTGCTGCAACTGGTGTGGCGACTACAGGCCCTGCGGTATGA
GCATGAGGAGTATGTCCTGCTGAAGGCCCTGGCCCTGGCCAATTCA

Alignment

ORF - retro_etel_733 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.75 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  VTSAMSSQVVGIEPLYIKAEPASPDSPKGSSETEPEPPVALA-PGP-APTRCLPGHKEEEDGEGAGPGEQ
          V.SAMSSQVVG.EPLYIKAEPAS..SPKGSSET..EP....A.P.P.A.....P....EE.GEGAGPGEQ
Retrocopy VPSAMSSQVVGMEPLYIKAEPASSNSPKGSSET--EPEPPVA<PSPWASSHPMPPMPQEEGGEGAGPGEQ

Parental  GGGKLVLSSLPKRLCLVCGDVASGYHYGVASCEACKAFFKRTIQGSIEYSCPASNECEITKRRRKACQAC
          GGGKLVLSS.PKRLCLVCGDVASGYHY..ASCEACKAFFKR.IQGSIEYSCPASN.CEITKRR.KACQ.C
Retrocopy GGGKLVLSSMPKRLCLVCGDVASGYHYDMASCEACKAFFKRIIQGSIEYSCPASNKCEITKRRCKACQPC

Parental  RFTKCL-RVGMLKEGVRLDRVR-GGRQKYKRRPEVDPLPFSGPFPTGPLAVAGGP-RKTAPVNALVSHLL
          .FTKCL..VGMLKEGV.LD.V..GGR......P...P.P.S.P.........G.P.R.TAPVNALVSHLL
Retrocopy CFTKCL<AVGMLKEGVHLDCVK<GGRE-VDSLPFSGPFPTS-PWQSRGFVGRGAP<RMTAPVNALVSHLL

Parental  VVEPEKLYAMPDPAGPDGHLPAVATLCDLFDREIVVTISWAKSIPGFSSLSLSDQMSVLQSVWMEVLVLG
          VVEPEKL.AMPD.AGPD.HLPAVATLCDLFDREIVVTISWAKSIPGF..LSLSDQMSV.QSVWMEVLVLG
Retrocopy VVEPEKLCAMPDLAGPDEHLPAVATLCDLFDREIVVTISWAKSIPGFWLLSLSDQMSVIQSVWMEVLVLG

Parental  VAQRSLPLQDELAFAEDLVLDEEGARAAG-LGELGAALLQLVRRLQALRLEREEYVLLKALALANS
          VA..SLPLQDELAF.ED.VLDEEG.RAAG.LGE.GAALLQLV.RLQALR.E.EEYVLLKALALANS
Retrocopy VAHHSLPLQDELAFTEDVVLDEEGTRAAG<LGERGAALLQLVWRLQALRYEHEEYVLLKALALANS

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_733 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 8 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018030	3 retrocopies	retro_cjac_3845, retro_cjac_3982, retro_cjac_4023,
Echinops telfairi	ENSETEG00000000262	1 retrocopy	retro_etel_733 ,
Homo sapiens	ENSG00000173153	2 retrocopies	retro_hsap_1171, retro_hsap_1237,
Gorilla gorilla	ENSGGOG00000001333	1 retrocopy	retro_ggor_970,
Macaca mulatta	ENSMMUG00000017803	1 retrocopy	retro_mmul_1275,
Nomascus leucogenys	ENSNLEG00000004971	2 retrocopies	retro_nleu_2855, retro_nleu_2856,
Pongo abelii	ENSPPYG00000003107	1 retrocopy	retro_pabe_63,
Pan troglodytes	ENSPTRG00000003833	1 retrocopy	retro_ptro_851,