RetrogeneDB ID: retro_etel_216

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_3721:93909..94442(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000005782
• Aliases: None
• Description: None

Sequence

>retro_etel_216
ATTGGCCATTTGCTGGGCTTTGCCTGAGTGGTGGGAATTTGCAGGACACCTGAGAAGTGCCTCTTTTTGACCTCAGAACT
AGGCTTTGATGGAGCAATTAATTATAAAAAGGGGAGCATGGCAGAACAACTACAGGAGCTGTGCCCCGCCAGAGTGGCTA
TCTACTTTGACAACATTGGGGGAGACATCACTGAAACAGTGATATATCAGATGAATCGAACAGCCACATCATCCCGTGTG
GTCAGATTTCCCAGTACAACAAGGATGTGCCTTATCCTCCCCCACTGGCCTCTGATGTAGAAGCAATCCGGAAAGAAAAC
AACATCACAAGGGAAAGATTTATGGTGTCAAATTACAAGGACAGGTCTGAGCCTGGCATTCTGCAGCCGAGACAATGGTT
TAAAGAAGGCAAAATAAAGATCAAAGAAACTATACTACACAGATTGGAAAACAAGGGAGCTGCATTCCAGGATTTGGTGA
CAGGAGGTAACATTGGAAAGCAGATAGTTTGCATTTCAGAAGAATTCACATTG

Alignment

ORF - retro_etel_216 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.59 %
• Parental protein coverage: 50.71 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IGHLLGCSRVVGICGTPEKCLFLTSELGFDGAINYKKGSVAEQLRELCPAGVDVYFDNVGGDITDTVIRQ
          IGHLLG...VVGIC.TPEKCLFLTSELGFDGAINYKKGS.AEQL.ELCPA.V..YFDN.GGDIT.TVI.Q
Retrocopy IGHLLGFA*VVGICRTPEKCLFLTSELGFDGAINYKKGSMAEQLQELCPARVAIYFDNIGGDITETVIYQ

Parental  MNQ-NSHIILCGQISQYNKDVPYPPPLAPDVEAIRKENNITRERFMVLNYKDRFEPGILQLSQWFKEGKI
          MN..NSHII.CGQISQYNKDVPYPPPLA.DVEAIRKENNITRERFMV.NYKDR.EPGILQ..QWFKEGKI
Retrocopy MNR<NSHIIPCGQISQYNKDVPYPPPLASDVEAIRKENNITRERFMVSNYKDRSEPGILQPRQWFKEGKI

Parental  KIKETILHGLENMGAAFQALMTGGNIGKQIVCISEEFTL
          KIKETILH.LEN.GAAFQ.L.TGGNIGKQIVCISEEFTL
Retrocopy KIKETILHRLENKGAAFQDLVTGGNIGKQIVCISEEFTL

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_216 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.

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000003747	1 retrocopy	retro_btau_1409,
Echinops telfairi	ENSETEG00000005782	1 retrocopy	retro_etel_216 ,
Echinops telfairi	ENSETEG00000006136	1 retrocopy	retro_etel_358,
Otolemur garnettii	ENSOGAG00000014524	1 retrocopy	retro_ogar_3340,