RetrogeneDB ID: retro_etel_1955

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_319511:8210..8577(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFB10
• Ensembl ID: ENSETEG00000017154
• Aliases: None
• Description: NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 10, 22kDa [Source:HGNC Symbol;Acc:7696]

Sequence

>retro_etel_1955
TTCATCGAGCAGCAACACGCCAAGAACAAGACCTGCTACTACCAGCGGCAGTTCCACCATGTGCCCGACATCACTGAGTG
CCAGGAAAAGGATGCCCTGTGCGTGTTCGAAGCCAAGATGCAGTGGCAGAGGGACTACAAAGTTGACCAGGAGATTGCCA
GCATCATGCAAGAGAGGCTGAAGGCCTGCCAGCAGCGGGAGGGCGAGAGCTATGTGCAGAACTGTGCCCGGGAGTTCGCC
CAAGTCCAAGGCCTACCAAGACGGCTACCAAGACCTGGGAGCTCACTACTCAGCCCCGGAGTGCCTGGCCAAGCAGAAGT
AGAGGATGCTGGCTGAGCAGAAGGCAGCCAAGGAGGCAGCTGCAGCC

Alignment

ORF - retro_etel_1955 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.38 %
• Parental protein coverage: 99.21 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FIEQQHAKNKTYYYHRQFRRVPDITECQEKDVLCMFEAEMQWRRDYKVDQEIANIMQERMKACQQREGQS
          FIEQQHAKNKT.YY.RQF..VPDITECQEKD.LC.FEA.MQW.RDYKVDQEIA.IMQER.KACQQREG.S
Retrocopy FIEQQHAKNKTCYYQRQFHHVPDITECQEKDALCVFEAKMQWQRDYKVDQEIASIMQERLKACQQREGES

Parental  YVQNCARELEQFAQVSK-AYQDRYQDLGAHYSARKCLAKQKQRMLAEQKAAKAAAEA
          YVQNCARE..Q........YQD....LGAHYSA..CLAKQK.RMLAEQKAAK.AA.A
Retrocopy YVQNCAREFAQVQGLPR>GYQD----LGAHYSAPECLAKQK*RMLAEQKAAKEAAAA

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_1955 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 13 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019476	1 retrocopy	retro_cfam_1861,
Echinops telfairi	ENSETEG00000017154	1 retrocopy	retro_etel_1955 ,
Felis catus	ENSFCAG00000011738	1 retrocopy	retro_fcat_307,
Homo sapiens	ENSG00000140990	2 retrocopies	retro_hsap_1573, retro_hsap_3801,
Gorilla gorilla	ENSGGOG00000009367	2 retrocopies	retro_ggor_1198, retro_ggor_2555,
Latimeria chalumnae	ENSLACG00000013152	1 retrocopy	retro_lcha_100,
Macaca mulatta	ENSMMUG00000029268	1 retrocopy	retro_mmul_2218,
Mus musculus	ENSMUSG00000040048	1 retrocopy	retro_mmus_2566,
Nomascus leucogenys	ENSNLEG00000008867	1 retrocopy	retro_nleu_1740,
Pongo abelii	ENSPPYG00000006974	2 retrocopies	retro_pabe_1297, retro_pabe_3106,
Pan troglodytes	ENSPTRG00000007618	2 retrocopies	retro_ptro_1060, retro_ptro_2578,
Rattus norvegicus	ENSRNOG00000014568	1 retrocopy	retro_rnor_1056,
Sus scrofa	ENSSSCG00000030328	1 retrocopy	retro_sscr_689,