RetrogeneDB ID: retro_tbel_1514

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_4941:25905..26758(+)
• Located in intron of: ENSTBEG00000003195

Retrocopy information

• Ensembl ID: ENSTBEG00000004516
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ENO3
• Ensembl ID: ENSTBEG00000002346
• Aliases: None
• Description: enolase 3 (beta, muscle) [Source:HGNC Symbol;Acc:3354]

Sequence

>retro_tbel_1514
AATGTGATCAATGGCGGCTCTCATGCTGGCAACAAGCTGGCCATGCAGGAGTTCATGATCCTCCCCGTGAGTGCAGCCAA
CTTCAGGGAGGCCGTGCGCATTGGAGCGGAAGTTTACCACAACCTGAAGAACGTCATCAAGGAGAAATATGGGAAAAATG
CCACCAACGTGGGTGACAAAGGCGGGTTTGCTCCTAACATCCTGGAGAACAAAGGAAGTCCTGGAGCTGCTGAAGAATGT
GATCGTGAAGGCTGGTTATTCTGACAAGGTTGTCATTGGCGTGGATGTGGCTGCCTCTGAGTTCTTCAGGTCTGGGAAGT
ACGATCTGAACTTTAAGTCTCCTGATGATGCCAGCAGGTACATCACACCTGACCAGCTGGCTGACCTGTACAAGACCTTC
AACAAGGACTACCCAGCGGTATCTATCAAAGACCCCTTTGATCAGGATGACTGGAATGCATGGCAGAAGTTCATAGCCAC
TGTGGGAATCCAGGTGGTGGTAGACGATCTCACTGTGACCAACCCAAAGTGCATTGCCAAGGCCGTGGGTGAGAAGTCGT
GCAACTGCCTCCTACTCAAAGTGAACCAGATCGGCTCCGTAACCGAGTCCCTTCAGGTGTGCAAGCTGGCCCAGTCCAAT
GGCTGGGGCGTGATGGTGTCTCATCGTTCCGGGGAGACTGAAGATACCTTCATTGCTGACCTGGTGGTGGGACTCTGCAC
TGGGCAGATCAAGACTGGTGCACCTTGTCGGTCTGAGCGCTTGGCCAAGTACAACCAGCTCCTCAGAACTGAAGAGGAAC
TGGGCAGCAAGGCAAAGCTTGCCGGCAGGAACTTCAGAAACCCCCTGGCCAAG

Alignment

ORF - retro_tbel_1514 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.95 %
• Parental protein coverage: 65.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NVINGGSHAGNKLAMQEFMILPVGASSFKEAMRIGAEVYHHLKGVIKAKYGKDATNVGDEGGFAPNILEN
          NVINGGSHAGNKLAMQEFMILPV.A..F.EA.RIGAEVYH.LK.VIK.KYGK.ATNVGD.GGFAPNILEN
Retrocopy NVINGGSHAGNKLAMQEFMILPVSAANFREAVRIGAEVYHNLKNVIKEKYGKNATNVGDKGGFAPNILEN

Parental  N-EALELLKTAIQAAGYPDKVVIGMDVAASEFYRNGKYDLDFKSPDDPARHITGEKLGELYKSFIKNYPV
          ..E.LELLK..I..AGY.DKVVIG.DVAASEF.R.GKYDL.FKSPDD..R.IT...L..LYK.F.K.YP.
Retrocopy K>EVLELLKNVIVKAGYSDKVVIGVDVAASEFFRSGKYDLNFKSPDDASRYITPDQLADLYKTFNKDYPA

Parental  VSIEDPFDQDDWGTWTSFLSGVDIQIVGDDLTVTNPKRIAQAVEKKACNCLLLKVNQIGSVTESIQACKL
          VSI.DPFDQDDW..W..F...V.IQ.V.DDLTVTNPK.IA.AV..K.CNCLLLKVNQIGSVTES.Q.CKL
Retrocopy VSIKDPFDQDDWNAWQKFIATVGIQVVVDDLTVTNPKCIAKAVGEKSCNCLLLKVNQIGSVTESLQVCKL

Parental  AQSNGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQLMRIEEALGDKAVFAGRKFR
          AQSNGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQL.R.EE.LG.KA..AGR.FR
Retrocopy AQSNGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQLLRTEEELGSKAKLAGRNFR

Parental  NPKAK
          NP.AK
Retrocopy NPLAK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_1514 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1514 was not experimentally validated.

Homology

Retrocopy orthology:

Tupaia belangeri 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.

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 42 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011679	2 retrocopies	retro_cjac_115, retro_cjac_177,
Dasypus novemcinctus	ENSDNOG00000011654	2 retrocopies	retro_dnov_1712, retro_dnov_75,
Macropus eugenii	ENSMEUG00000007915	25 retrocopies	retro_meug_1019, retro_meug_1341, retro_meug_1483, retro_meug_1540, retro_meug_1566, retro_meug_1605, retro_meug_170, retro_meug_1701, retro_meug_1743, retro_meug_1869, retro_meug_1905, retro_meug_1929, retro_meug_2026, retro_meug_2190, retro_meug_235, retro_meug_269, retro_meug_578, retro_meug_607, retro_meug_637, retro_meug_803, retro_meug_820, retro_meug_906, retro_meug_965, retro_meug_973, retro_meug_976,
Rattus norvegicus	ENSRNOG00000004078	1 retrocopy	retro_rnor_2228,
Tupaia belangeri	ENSTBEG00000002346	5 retrocopies	retro_tbel_1514 , retro_tbel_3080, retro_tbel_3130, retro_tbel_4230, retro_tbel_4383,
Tarsius syrichta	ENSTSYG00000007066	7 retrocopies	retro_tsyr_1019, retro_tsyr_1157, retro_tsyr_1626, retro_tsyr_1917, retro_tsyr_2043, retro_tsyr_52, retro_tsyr_534,