RetrogeneDB ID: retro_etel_1604

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_282492:43035..43401(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM230
• Ensembl ID: ENSETEG00000018264
• Aliases: None
• Description: transmembrane protein 230 [Source:HGNC Symbol;Acc:15876]

Sequence

>retro_etel_1604
CAATGTGTTGCAAAGCTCTCTTGTACCACTTTGGCTACTGGAACCCCCTGCAGTGAAGTATTATATCCAAGGCTTTCCAG
CACAAAGGATGGTTACAATGACTTTCAGTTCAAAGTAGACTTCCTAAGATCCCTTATAAGGCCACTGTACTTGTCACCAT
GTTGTTTTTGATTGATTACTTTTCTTTACCATTGACTCCCTCCTACTGGCAGCCTGCATCAGAAAAAGGAGCCATACCTA
GCAAGCAATTCTGATCCTTATCACTGGCATTCTGGTGTTTCTGCTAGGCTTCTACCATCCACACATCACCTCTACATATC
TAAAGGTTACAGAGGACACTCCTATGAAAGCATTCTAGACTTTGAT

Alignment

ORF - retro_etel_1604 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.35 %
• Parental protein coverage: 97.6 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QRVMMPSRTNLAAGLPSSKVKYSRLASTDDGYIDLQFK-KSPPKIPYKAIALATVLFLIGTFLI-IIGSL
          Q.V...S.T.LA.G.P.S.V.Y.RL.ST.DGY.D.QFK....PKIPYKA..L.T.LFLI..F....I.SL
Retrocopy QCVAKLSCTTLATGTPCSEVLYPRLSSTKDGYNDFQFK<SRLPKIPYKATVLVTMLFLIDYFSL<TIDSL

Parental  LLAGYISKGGAD-RAVPVLIIGILVFLPGFYHLRIA-YYASKGYRGYSYDDIPDFD
          LLA..I.K......A...LI.GILVFL.GFYH..I...Y.SKGYRG.SY..I.DFD
Retrocopy LLAACIRKRSHT*QAILILITGILVFLLGFYHPHIT<LYISKGYRGHSYESILDFD

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_1604 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000006063	2 retrocopies	retro_btau_1079, retro_btau_147,
Echinops telfairi	ENSETEG00000018264	2 retrocopies	retro_etel_1604 , retro_etel_665,
Myotis lucifugus	ENSMLUG00000023089	2 retrocopies	retro_mluc_1504, retro_mluc_1759,
Ictidomys tridecemlineatus	ENSSTOG00000019378	1 retrocopy	retro_itri_35,
Vicugna pacos	ENSVPAG00000007009	1 retrocopy	retro_vpac_212,