RetrogeneDB ID: retro_etel_199

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_3506:138583..139013(+)
• Located in intron of: ENSETEG00000011004

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000004801
• Aliases: None
• Description: None

Sequence

>retro_etel_199
CGCACTAGAGGAGAGATGGATGATGGGCTGGCCAAGGGAGGGCCTCAGCGATCCATCATGTAGGTGATCAAGCTGTTTGA
CTGGAGTGTGGACTTGGCCCAGTACAGTGAGAACACCCCGCTGTATTCCATCTGTGTGCCTGGATGCGCAGCAGTCCCAC
CGCACAAGAGCGAGAGCGTTCACCCACCTCACCACTGCCTGAGGATGAGGAGGGGTCAGAGGTTACCAACAGCAAGAGTT
GTGATGTGTACAAGCTACCTCCACCCACGGCCCCTAGAGATTCCTGCAGAACTCGGATTCCCTCCCCATTGTAGCCTGAG
ACCCAGGGTACCCCAGATGATGAACCTGCTGAGCCGGAGCCGGCACCCTCATCCACCGCGACATGTGGTGCTGGAAATGC
ATTTGCCAGCGGTGAAAGGAGGCATCCCAT

Alignment

ORF - retro_etel_199 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.83 %
• Parental protein coverage: 61.83 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KKKREMNDGLAEGGPPRSNTYVIKLFDRSVDLAQFSENTPLYPICR-AWMRNSPTSRERDRSPTSPLPPP
          ....EM.DGLA.GGP.RS...VIKLFD.SVDLAQ.SENTPLY.IC..AWMR.SPT..ER.RSPTSPL...
Retrocopy RTRGEMDDGLAKGGPQRSIM*VIKLFDWSVDLAQYSENTPLYSICV<AWMRSSPTAQERERSPTSPL---

Parental  PEDEEGSEVTNSKSRDVYKLPPPMAPGDSCRTRIPSPLQPETQGTPDDEPAEPEPAPS-TLIYRNMQRWK
          PEDEEGSEVTNSKS.DVYKLPPP.AP.DSCRTRIPSPL.PETQGTPDDEPAE..P.P..TLI.R.M..WK
Retrocopy PEDEEGSEVTNSKSCDVYKLPPPTAPRDSCRTRIPSPL*PETQGTPDDEPAE--PEPA<TLIHRDMWCWK

Parental  RIRQRWKEASH
          .I.QR.KEASH
Retrocopy CICQR*KEASH

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_199 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010100	1 retrocopy	retro_cjac_2736,
Echinops telfairi	ENSETEG00000004801	1 retrocopy	retro_etel_199 ,
Mus musculus	ENSMUSG00000036845	1 retrocopy	retro_mmus_2542,
Tursiops truncatus	ENSTTRG00000003834	1 retrocopy	retro_ttru_1074,