RetrogeneDB ID: retro_etel_210

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_3675:40829..41244(-)
• Located in intron of: ENSETEG00000002586

Retrocopy information

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

Parental gene information

• Parental gene symbol: COMMD8
• Ensembl ID: ENSETEG00000020257
• Aliases: None
• Description: COMM domain containing 8 [Source:HGNC Symbol;Acc:26036]

Sequence

>retro_etel_210
AGCGCTTGGGACTCAACAGAATGGATAACAGTTCTAGAAGATAGTACCACATATTTTCAAAGCTACCGTGGGGAAAAATT
TATCTGAGGACGAGCTATCTCAGTAGTTCCATTGCTGCATCCCTGTCATCAGGGCGAAACCATGAAATCTTGAAGAGCAG
AAACGAGGGCATCGGGCAGGTTCTGCTAAGAGAAGTAGCTGACATTTCCCCTGGCCAGCTCCAGGGTTTTGATTGGCCAG
TAAAGCTTGCACTTTCTAGGGACAAGGTTACATCACAGTGGCCTCATTAAACCTTGGCCTGGACCTCAAAGAAAATGGTG
ACGTGAAACCCTATTCTGCTGAGATGAGGAAAGCGGGGCTGCGAAGTCGAACAATCTCCCTGGAAGCGGTTCAGGAGTCG
GTCCTGCAGGTGAAA

Alignment

ORF - retro_etel_210 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.08 %
• Parental protein coverage: 76.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  SVWDSTEWIHVREDITTF-FKDAVGKSLSDEEISQ-QLNQLHSFHQEAIMK-CLRSRKDEIKQALLGEIA
          S.WDSTEWI.V.ED.TT..FK..VGK.LS..E.SQ.....LH..HQ...MK..L.SR...I.Q.LL.E.A
Retrocopy SAWDSTEWITVLEDSTTY>FKATVGKNLSEDELSQ<VVPLLHPCHQGETMK<ILKSRNEGIGQVLLREVA

Parental  AISSAQLQDFDWQLKLALSSDKIAALQMP-LLTLHLDVKEKGAATPCCVEMSREELQSLIESLEAANKEV
          .IS..QLQ.FDW..KLALS.DK....Q.P..L.L.LD.KE.G...P...EM....L.S...SLEA....V
Retrocopy DISPGQLQGFDWPVKLALSRDKVTS-QWP<SLNLGLDLKENGDVKPYSAEMRKAGLRSRTISLEAVQESV

Parental  LQVQ
          LQV.
Retrocopy LQVK

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_210 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001348	1 retrocopy	retro_btau_579,
Echinops telfairi	ENSETEG00000020257	3 retrocopies	retro_etel_1416, retro_etel_182, retro_etel_210 ,
Felis catus	ENSFCAG00000023811	1 retrocopy	retro_fcat_421,
Myotis lucifugus	ENSMLUG00000011376	1 retrocopy	retro_mluc_1158,
Macaca mulatta	ENSMMUG00000021777	1 retrocopy	retro_mmul_434,
Ochotona princeps	ENSOPRG00000000739	1 retrocopy	retro_opri_805,
Ictidomys tridecemlineatus	ENSSTOG00000001221	1 retrocopy	retro_itri_1566,