RetrogeneDB ID: retro_etel_1755

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_292301:145017..145575(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000001004
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: OSER1
• Ensembl ID: ENSETEG00000013561
• Aliases: None
• Description: oxidative stress responsive serine-rich 1 [Source:HGNC Symbol;Acc:16105]

Sequence

>retro_etel_1755
ATGAAGTCTGAAGCCAAGGATGGAGAGGAGGAACGTCTACACACTGCCTTCCAGAAGTTACGAGTGGATGCATCAGGGGC
CGTAGCAGCTCTGTCTGTAAGAGAAGGAACATCAGTCCGAACAACCTCCGAGGACACCAAAGTTAACACCACATGCACCG
CTAAAGACAGTTGCCATGGCTCTACAAGGACGTCTTCGAAAGGAGCAGCAAGAACCCAGCGCCAGGCCAGTCTAAATCTC
CCGTCCTTCATTCTCCCACGCTTACACATTGCAGCACATTAACTGCTTCTTCCAGCAGCCAGCTGAAGCACAAAAGCCAG
ACTGAGTCCCTCGATGGCAGCAGTGGACTGGGATTTCCAGTCCCCGAAGAGTCACTGCAGGGGAATGTGTGCCACCTCCT
CCTGATGCTGCTCACATGGGGGCAGTCACCGAGCCTTTGCCAGCTGCTGTTCTGGGGCTCCAGTCAGAGAGTTGCGACAA
AGGCTCTCTGATGTTACCCAAGGCTCCCAAGCAAGTCTCAAGGCCAACCATCTCTCTGACTTTGGGTCTGTTTCCAGG

Alignment

ORF - retro_etel_1755 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.71 %
• Parental protein coverage: 65.19 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MKSEAKDGEEESLQTAFKKLRVDASGSVAALSVGEGTGVRTSARTTTEDTKSKATGTAKDSWHGSTRKSS
          MKSEAKDGEEE.L.TAF.KLRVDASG.VAALSV.EG....TS.RTT.EDTK...T.TAKDS.HGSTR.SS
Retrocopy MKSEAKDGEEERLHTAFQKLRVDASGAVAALSVREG----TSVRTTSEDTKVNTTCTAKDSCHGSTRTSS

Parental  RGAARTQRRR-RSKSPVLHPPKFIHCSTLTASSSNQLKHKSQTESPDGSSGL-GISAPKEFTAGECVPPP
          .GAARTQR....SKSPVLH.P...HCSTLTASSS.QLKHKSQTES.DGSSGL.GIS.P...TAGECVPPP
Retrocopy KGAARTQRQA<QSKSPVLHSPTLTHCSTLTASSSSQLKHKSQTESLDGSSGL<GISSPRRVTAGECVPPP

Parental  PDTTHMGPVNEPLPTVVPGLRSES-TKEDCADVTQVSQANLKANHLSDFGSVSK
          PD..HMG.V.EPLP..V.GL.SES.......DVTQ.SQA.LKANHLSDFGSVS.
Retrocopy PDAAHMGAVTEPLPAAVLGLQSES<LRQRLSDVTQGSQASLKANHLSDFGSVSR

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_1755 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008281	1 retrocopy	retro_chof_1318,
Echinops telfairi	ENSETEG00000013561	1 retrocopy	retro_etel_1755 ,
Mus musculus	ENSMUSG00000035399	1 retrocopy	retro_mmus_713,