RetrogeneDB ID: retro_etel_845

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_174730:4297..4745(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TYW3
• Ensembl ID: ENSETEG00000012572
• Aliases: None
• Description: tRNA-yW synthesizing protein 3 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:24757]

Sequence

>retro_etel_845
CAAGATAACGTGATTGTTGTTCAGCATAAGCACGTGTTCCTGCCACTTTGAAATTTGAGCCATTTATTCTTCGTGTGCAG
TGTTGACACCTGCAGGATGCAAAGCTTCTGCACCCAGCAGCGGTGTATTCTGGTTTCCGAATCTCCAGTATAACTGTCGG
GAACAAAGGAAAGGTAATGTCTGTTCAGAGTGCACATGGCTTAGAAATTCCTGTAAGCCATACGGGACAACTGATGGAGG
CAGAGGAGTCTATTGACCTCCTGTTAAATATAGCAAATCAAAATATGGAAGAAAACAAGAAGATAATTGAAAGATTCTAC
AATTGCCTCTACCATGCTTTGCAAATGGCAACTACTGCTAAATCATATCCTAAGAGCAAAGAGAAAAATAATCCACCACA
TACTCATAAGAAAAAAGGAACTCAGAGCAAGCAGGTGACAAATGTATA

Alignment

ORF - retro_etel_845 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.09 %
• Parental protein coverage: 75.5 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KDDVMVALKK-AGGDAILKFEPFILHVQCRQLQDAQLLHSVAIDSGFRNSGITVGKRGKTMLAVRSTHGL
          .D.V.V...K.A...A.LKFEPFIL.VQC..LQDA.LLH..A..SGFR.S.ITVG..GK.M..V.S.HGL
Retrocopy QDNVIVVQHK<ARVPATLKFEPFILRVQC*HLQDAKLLHPAAVYSGFRISSITVGNKGKVM-SVQSAHGL

Parental  EVPLTHKGKLMVTEEYIDFLLNLANQKMEENKKRIERLYNCLQHALEMETTTKSQPKIRERNNLLSTHKK
          E.P..H.G.LM..EE.ID.LLN.ANQ.MEENKK.IER.YNCL.HAL.M.TT.KS.PK..E.NN...THKK
Retrocopy EIPVSHTGQLMEAEESIDLLLNIANQNMEENKKIIERFYNCLYHALQMATTAKSYPKSKEKNNPPHTHKK

Parental  -GRNPETVGDRCI
          ..RN.E..GD.CI
Retrocopy <KRNSEQAGDKCI

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_845 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000002718	1 retrocopy	retro_dord_487,
Echinops telfairi	ENSETEG00000012572	1 retrocopy	retro_etel_845 ,
Tursiops truncatus	ENSTTRG00000010464	1 retrocopy	retro_ttru_1604,