RetrogeneDB ID: retro_etel_425

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_708:60124..60718(+)
• Located in intron of: ENSETEG00000017442

Retrocopy information

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

Parental gene information

• Parental gene symbol: MOB1A
• Ensembl ID: ENSETEG00000018245
• Aliases: None
• Description: MOB kinase activator 1A [Source:HGNC Symbol;Acc:16015]

Sequence

>retro_etel_425
ACCAGCCGTTCTTCTAAAGCATTCAAACTAAAGAATATCCCCAAAGGTTCTCATCAGTATGAACTCTTAAAACATGCAGA
AGCAACTCTAGGAAGGGGGGGATCTGAGACAAGCTGTTATGTTGCCAGGGGGAGAGGACCTCAATGAATGGATTGCTGTT
AACTCTGGATTTCTTCAACCAGATCAACATGTTAGATGGAACATACTTCACAGAAGCAAGCTGTCCAATGATGTCGGCAG
GTACAGGACAGGTATATCATTGGGCAGATGGTACTAATATAAAACAGCCCATCAAATGTTCTGCACCAAAATATATTGAC
TATTTGATGACTTGGGTTCAGGATCAGCTTGAATGGTGAAATTCTTTTCCCTTTCAAGATTGGTGTCCTATTTCCTCCAA
ATCTTATGTTTTTGGCTAAAACTATTCTCTTCAGGGTTTAAGCCCATATTTTTCATCAGCACTTGGATTGTATGATGCAG
CTGCAAGAGGAGGCCCACCTCAACACCTCATTGAAGCACTTTATATTCTTTGTTCAGGAGTTCAATCTGATTGAGTGGTG
CGAGTTGGCACCTCTCTAAGAACTAATTGAGAAG

Alignment

ORF - retro_etel_425 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.63 %
• Parental protein coverage: 99.51 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SSRSSKTFKPKKNIPEGSHQYELLKHAEATLGSGNLRQA-VMLPEGEDLNEWIAVNTVDFFNQINMLYGT
          .SRSSK.FK..KNIP.GSHQYELLKHAEATLG.G...........GE.........T.DFFNQINML.GT
Retrocopy TSRSSKAFK-LKNIPKGSHQYELLKHAEATLGRGGSETS<LLCCQGERTSMNGLLLTLDFFNQINMLDGT

Parental  ITEFCTEASCPVMSAGPRYEYHWADGTNIKKPIKCSAPKYIDYLMTWVQDQLD-DETLFPSKIGVPFPKN
          .....TEASCP.MSAG....YHWADGTNIK.PIKCSAPKYIDYLMTWVQDQL...E.LFP.KIGV.FP.N
Retrocopy ---YFTEASCPMMSAGTGQVYHWADGTNIKQPIKCSAPKYIDYLMTWVQDQLE>GEILFPFKIGVLFPPN

Parental  FMSVAKTILKRLFRVYAHIYHQHFDSVMQLQEEAHLNTSFKHFIFFVQEFNLIDRRELGAVHVLNEK
          .M..AKTIL...FRV.AHI.HQH.D..MQLQEEAHLNTS.KHFIFFVQEFNLI...EL.....L.EK
Retrocopy LMFLAKTIL---FRV*AHIFHQHLDCMMQLQEEAHLNTSLKHFIFFVQEFNLIEWCELAPL*ELIEK

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_425 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 15 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017359	1 retrocopy	retro_amel_1889,
Canis familiaris	ENSCAFG00000008735	1 retrocopy	retro_cfam_2054,
Choloepus hoffmanni	ENSCHOG00000007277	1 retrocopy	retro_chof_502,
Dasypus novemcinctus	ENSDNOG00000012838	3 retrocopies	retro_dnov_1948, retro_dnov_2226, retro_dnov_337,
Echinops telfairi	ENSETEG00000018245	1 retrocopy	retro_etel_425 ,
Homo sapiens	ENSG00000114978	2 retrocopies	retro_hsap_1223, retro_hsap_4670,
Gorilla gorilla	ENSGGOG00000010015	1 retrocopy	retro_ggor_954,
Loxodonta africana	ENSLAFG00000014338	2 retrocopies	retro_lafr_223, retro_lafr_285,
Macaca mulatta	ENSMMUG00000015208	2 retrocopies	retro_mmul_1299, retro_mmul_297,
Mustela putorius furo	ENSMPUG00000007824	2 retrocopies	retro_mputfur_754, retro_mputfur_770,
Nomascus leucogenys	ENSNLEG00000000321	2 retrocopies	retro_nleu_2161, retro_nleu_694,
Otolemur garnettii	ENSOGAG00000003504	1 retrocopy	retro_ogar_2688,
Pongo abelii	ENSPPYG00000012284	2 retrocopies	retro_pabe_1017, retro_pabe_3629,
Pan troglodytes	ENSPTRG00000012079	2 retrocopies	retro_ptro_3103, retro_ptro_837,
Rattus norvegicus	ENSRNOG00000042657	2 retrocopies	retro_rnor_2544, retro_rnor_2545,