RetrogeneDB ID: retro_etel_391

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_6685:19686..20127(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HRAS
• Ensembl ID: ENSETEG00000019899
• Aliases: None
• Description: Harvey rat sarcoma viral oncogene homolog [Source:HGNC Symbol;Acc:5173]

Sequence

>retro_etel_391
ATGACTGAGCACAAACCGGTGGTGTTTGGCGCAGGTGGGGTTGGGACAAGCGCTATGACAATCCAACTAAACAGAACCAC
TTTGTAGACAAGTGTGACCCCATTACAGAGGAGTCGTACCTGAAACAGATGGTTGTAGATGGTGAAACCTGTCTGTTGAA
CAGAAAGGACACAGCTGGACGAGAGGAGTACAGTGCCACGAGAGACCAGTACATGAGGACGGGGGAAGGCTTCCTCTGGG
TGTTTGCCATCAATAATAGCAATTCATTTGCAGATGTTAGCCTCTCCAAGGAGCAGATGAAATAAAGAAGACTCAGATGA
TGAACCTATGGTGCTGTTAGGAAACAAGTGTGATTTGCCAACAAGGGCAGTTGACACAAAACAAACACATGAACTGGCCA
AAAGCTATGGGATTCCGTTCATTAAAACCTCAGCCAAGACC

Alignment

ORF - retro_etel_391 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64. %
• Parental protein coverage: 78.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MTEYKLVVVGAGGVGKSALTIQLI-QNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRD
          MTE.K.VV.GAGGVG.SA.TIQL..QNHFVD..DP..E.SY.KQ.V.DGETCLL...DTAG.EEYSA.RD
Retrocopy MTEHKPVVFGAGGVGTSAMTIQLN<QNHFVDKCDPITEESYLKQMVVDGETCLLNRKDTAGREEYSATRD

Parental  QYMRTGEGFLCVFAINNTKSFEDVHQYREQIK-RVKDSDDVPMVLVGNKCDLPARTVESRQAQDLARSYS
          QYMRTGEGFL.VFAINN..SF.DV....EQ.K......D.....L.GNKCDLP.R.V...Q...LA.SY.
Retrocopy QYMRTGEGFLWVFAINNSNSFADVSLSKEQMK>KEDSDDEPMVLL-GNKCDLPTRAVDTKQTHELAKSYG

Parental  LPYIETSAKT
          .P.I.TSAKT
Retrocopy IPFIKTSAKT

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_391 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 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000015293	3 retrocopies	retro_dnov_1358, retro_dnov_154, retro_dnov_2354,
Echinops telfairi	ENSETEG00000000242	1 retrocopy	retro_etel_11,
Echinops telfairi	ENSETEG00000016893	2 retrocopies	retro_etel_1196, retro_etel_176,
Echinops telfairi	ENSETEG00000019899	2 retrocopies	retro_etel_1028, retro_etel_391 ,
Macropus eugenii	ENSMEUG00000008467	1 retrocopy	retro_meug_852,
Microcebus murinus	ENSMICG00000006472	1 retrocopy	retro_mmur_948,
Rattus norvegicus	ENSRNOG00000016611	1 retrocopy	retro_rnor_2941,