RetrogeneDB ID: retro_etel_1326

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_247368:582..1182(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000016092
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: GPD1
• Ensembl ID: ENSETEG00000020375
• Aliases: None
• Description: glycerol-3-phosphate dehydrogenase 1 (soluble) [Source:HGNC Symbol;Acc:4455]

Sequence

>retro_etel_1326
AAAGTGTGCATTGTGGGCTCTGGGAACTGGGGCTCCGCCATTGCGAAAATCATTGGTAATAATGTAAAGAAACTGCAGCA
GTTTGCTCCCACGGTCAAGATGTGGGTGTTTGAAGAAGTGATAGATGGGCGAAAACTGACAGACATCATCAACAGTGACC
ACGAGAATGTCAGGTATCTCCCGGGGCACAAGCTGCCGGAAAACGTGGTGGCTGTCCCAAGTCTGACGGAGGCCGTGCAG
GACGCAGACCTGCTGGTCTTCGTCATTCCGCACCAGTACATCCACAAGATCTGTGACGGGATCAGTGGGAAGGTGTCCAG
GAAGGCGCTGGGGATCAGTCTCATTAAGGGGCTGGAGGAGGGCCACCAGGGGCTGAAGCTCATCTCCGACATCATCCGCG
AGAAGCTGGACATTGACGTCAGTGTGCTCATGGGCGCCAACACGGCCACCGAGGTGGCGGAGGAGCAGTTCTGCGAGACA
ACTGTGGGCAGCAAGGCGGTGAAGAACGGCTTCCTATTCAAGAAGCTCCTGCAGACCCCCAACTTCCGCGTCACCGTGGT
GGACGACGCGGACACCGTGGAGCTCTGCGGGGCTCTGAGA

Alignment

ORF - retro_etel_1326 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.5 %
• Parental protein coverage: 57.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KVCIVGSGNWGSAIAKIVGSNAAQLARFDPRVTMWVFEEDIGGRKLTEIINTQHENVRYLPGHKLPPNVV
          KVCIVGSGNWGSAIAKI.G.N...L..F.P.V.MWVFEE.I.GRKLT.IIN..HENVRYLPGHKLP.NVV
Retrocopy KVCIVGSGNWGSAIAKIIGNNVKKLQQFAPTVKMWVFEEVIDGRKLTDIINSDHENVRYLPGHKLPENVV

Parental  AIPDVAHAAADADILIFVVPHQFIIKICDQLKGHLKAKAIGISLIKGVDEGPNGLKLISEVIGERLGIPM
          A.P....A..DAD.L.FV.PHQ.I.KICD...G....KA.GISLIKG..EG..GLKLIS..I.E.L.I..
Retrocopy AVPSLTEAVQDADLLVFVIPHQYIHKICDGISGKVSRKALGISLIKGLEEGHQGLKLISDIIREKLDIDV

Parental  SVLMGANIASEVADEKFCETTIGCKDPAQGQLLKELMQTPNFRITVVQEVDTVEICGALK
          SVLMGAN.A.EVA.E.FCETT.G.K....G.L.K.L.QTPNFR.TVV...DTVE.CGAL.
Retrocopy SVLMGANTATEVAEEQFCETTVGSKAVKNGFLFKKLLQTPNFRVTVVDDADTVELCGALR

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_1326 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
Echinops telfairi	ENSETEG00000020375	1 retrocopy	retro_etel_1326 ,
Macropus eugenii	ENSMEUG00000015143	1 retrocopy	retro_meug_346,
Ictidomys tridecemlineatus	ENSSTOG00000004948	1 retrocopy	retro_itri_1868,
Tursiops truncatus	ENSTTRG00000001012	1 retrocopy	retro_ttru_1295,