RetrogeneDB ID: retro_etel_672

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_14039:1447..1859(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000004738
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RHOQ
• Ensembl ID: ENSETEG00000019234
• Aliases: None
• Description: ras homolog family member Q [Source:HGNC Symbol;Acc:17736]

Sequence

>retro_etel_672
GACTATGACCGGCTGAGGTCTTTATCCTACCCGAAAGACTGGTGTCTTCCTGAAATGCTTCTCTGTGGTGAATCCAGCCT
CGTTCCAACTTGTGAAAGAGGAGTGGGTACCAGAACTTAAGGACTATGCGCCCAATGTCCCCTTTTTATTAATAGGAACT
CAGATCGATCTTCGAGATGACCCCAGAACGTTAGCAAGACTGAATGATATCAAAGAAAAACCCGTGTGTGTGGAACAAGG
ACAGAAACTAGCAAAAGAGATAGGAGCATGCTGCTACGTGGAATGTTCAGCTTTAACCCAGAAGGGATTGAAGACTGTTT
TTGATGGGGCTAACATAGCCATTTTAACCCCAAAGAAGCACACAGTCAAGAAAAGAATAGGATCAAGATGTATAAACTGT
TGCTTGATTACG

Alignment

ORF - retro_etel_672 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.03 %
• Parental protein coverage: 87.26 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DYDRLRPLSYPM-TDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLND
          DYDRLR.LSYP..T.VFL.CFSVVNPASFQ.VKEEWVPELK.YAPNVPFLLIGTQIDLRDDP.TLARLND
Retrocopy DYDRLRSLSYPK>TGVFLKCFSVVNPASFQLVKEEWVPELKDYAPNVPFLLIGTQIDLRDDPRTLARLND

Parental  MKEKPVCVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAILTPKKHTVKKRIGSRCINCCLIT
          .KEKPVCVEQGQKLAKEIGACCYVECSALTQKGLKTVFD.A.IAILTPKKHTVKKRIGSRCINCCLIT
Retrocopy IKEKPVCVEQGQKLAKEIGACCYVECSALTQKGLKTVFDGANIAILTPKKHTVKKRIGSRCINCCLIT

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_672 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 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006082	1 retrocopy	retro_amel_383,
Choloepus hoffmanni	ENSCHOG00000000549	3 retrocopies	retro_chof_2030, retro_chof_457, retro_chof_914,
Erinaceus europaeus	ENSEEUG00000015226	1 retrocopy	retro_eeur_129,
Echinops telfairi	ENSETEG00000004443	1 retrocopy	retro_etel_2010,
Echinops telfairi	ENSETEG00000012902	3 retrocopies	retro_etel_1565, retro_etel_1645, retro_etel_42,
Echinops telfairi	ENSETEG00000019234	3 retrocopies	retro_etel_1468, retro_etel_596, retro_etel_672 ,
Felis catus	ENSFCAG00000015608	1 retrocopy	retro_fcat_795,
Myotis lucifugus	ENSMLUG00000001567	1 retrocopy	retro_mluc_595,
Pteropus vampyrus	ENSPVAG00000013691	1 retrocopy	retro_pvam_611,
Rattus norvegicus	ENSRNOG00000015415	1 retrocopy	retro_rnor_473,
Sus scrofa	ENSSSCG00000008439	1 retrocopy	retro_sscr_102,
Tursiops truncatus	ENSTTRG00000011892	1 retrocopy	retro_ttru_805,