RetrogeneDB ID: retro_etel_279

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_4624:74562..75136(+)
• Located in intron of: ENSETEG00000020153

Retrocopy information

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

Parental gene information

• Parental gene symbol: EIF2S1
• Ensembl ID: ENSETEG00000019003
• Aliases: None
• Description: eukaryotic translation initiation factor 2, subunit 1 alpha, 35kDa [Source:HGNC Symbol;Acc:3265]

Sequence

>retro_etel_279
GGGGGCTATGCCAGCTTGCTGGAGTACAACAACATGGAAGGCATGATTCTTCTGCGTGAGCTGTCCAGAAGGCGGATCCA
TCTATAAACAAACTCATCTAAATGGGCAGGGATGAACGTGTGGTGGTCATTCGAGTGGGACAAAGAGAAAGGACACTTTG
ATGTGTGAAAAAAGAAAAGTTTCTCCAGAGGAAGCAATCAAATGTGAAGACAAATTCACCAAATCCAAAACTGTTTCCCG
CATCCTTCGTCAGGTGACGGAGGTGTCAGAACACACCAAGGACGAGCAGCTGGAGAGACTGTGCCAGAGGACTGCCTGGG
TATTTGATGACAGGTTCAGGAGACCCGGATACGGTGCCTATGATGTATTTAAGCACGCAGTCTCAGACCCAGCTGTTCTG
GACACTTTAGATTTGAATGAAAATGAACGGCGAGTACTCATTGACAATATTAATAGGCGTTTGACTCCACAGGCTGTAAC
AATCCGAGCAGACATTGCAGGAGCTCGTGCTGGATCCGAAGGCATTGATGCTGTTAAAGAAGCCCTGAGAGCAGGCTTGA
ACTGCCCCACAGAT

Alignment

ORF - retro_etel_279 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.41 %
• Parental protein coverage: 69.71 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GAYVSLLEYNNIEGMILLSELSRRRIR-SINKLIRIGRNECVVVIRV-DKEKGYIDL-SKRRVSPEEAIK
          G.Y.SLLEYNN.EGMILL.ELSRRRI..SINKLI..GR.E.VVVIRV.DKEKG..D...KR.VSPEEAIK
Retrocopy GGYASLLEYNNMEGMILLRELSRRRIH<SINKLI*MGRDERVVVIRV>DKEKGHFDV>EKRKVSPEEAIK

Parental  CEDKFTKSKTVYSILRHVAEVLEYTKDEQLESLFQRTAWVFDDKYRRPGYGAYDAFKHAVSDPAILDSLD
          CEDKFTKSKTV..ILR.V.EV.E.TKDEQLE.L.QRTAWVFDD..RRPGYGAYD.FKHAVSDPA.LD.LD
Retrocopy CEDKFTKSKTVSRILRQVTEVSEHTKDEQLERLCQRTAWVFDDRFRRPGYGAYDVFKHAVSDPAVLDTLD

Parental  LNENERRVLIDNINRRLTPQAVKIRADIEVACYGYEGIDAVKEALRAGLNCSTE
          LNENERRVLIDNINRRLTPQAV.IRADI..A..G.EGIDAVKEALRAGLNC.T.
Retrocopy LNENERRVLIDNINRRLTPQAVTIRADIAGARAGSEGIDAVKEALRAGLNCPTD

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_279 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 9 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000016311	1 retrocopy	retro_btau_1191,
Callithrix jacchus	ENSCJAG00000015368	1 retrocopy	retro_cjac_2067,
Cavia porcellus	ENSCPOG00000003313	1 retrocopy	retro_cpor_1146,
Echinops telfairi	ENSETEG00000019003	1 retrocopy	retro_etel_279 ,
Monodelphis domestica	ENSMODG00000009911	1 retrocopy	retro_mdom_1754,
Mus musculus	ENSMUSG00000021116	4 retrocopies	retro_mmus_1342, retro_mmus_1927, retro_mmus_1960, retro_mmus_728,
Oryctolagus cuniculus	ENSOCUG00000012023	1 retrocopy	retro_ocun_1677,
Rattus norvegicus	ENSRNOG00000009432	3 retrocopies	retro_rnor_1234, retro_rnor_1423, retro_rnor_2218,
Sarcophilus harrisii	ENSSHAG00000009815	1 retrocopy	retro_shar_560,