RetrogeneDB ID: retro_tbel_2495

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_112067:41..471(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: POLR3G
• Ensembl ID: ENSTBEG00000002278
• Aliases: None
• Description: polymerase (RNA) III (DNA directed) polypeptide G (32kD) [Source:HGNC Symbol;Acc:30075]

Sequence

>retro_tbel_2495
ATGGCTGGGAACAAAGGAAGAGGTCTTGTGGCTTACACGTTTAATATTGAGGCAGTTGGATTCAGCACAGGGGACAAGTT
GCCTGATGTAGTATTGAAACCACCCCCGTAGTTTCCTGATACAGATTATAAGGCAGTGCCTCTGAAAATAGGAGAAGGTG
AAGAATATATGCTGGCTTTGAAGCAGGAGTTGAGAGAAACAATGAAAAGAATGCCTTATTTTATTGAAACACAAGAAGAA
AAACAAGATATTGAAAGGTATAGTAAAAGATTATGAAGGTATACTATCTGATACCAGATTGGAGAAGACTTCCAAGAGAG
ATGATGCCAAGGAAAAAACAGAAAAAAGCAGGTGCCACATCTCAGAAGGCAAAAAATACAGTCAAAGGAAATCCGTCTCT
AATACTGCAGATGTGTTGAAAAGAATCGAG

Alignment

ORF - retro_tbel_2495 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.49 %
• Parental protein coverage: 62.5 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAGNKGRGRAAYTFNIEAVGFSRGEKLPDVVLKPPPLFPDTDYKAVPLKIGEGEEYMLALKQELRETMKR
          MAGNKGRG..AYTFNIEAVGFS.G.KLPDVVLKPPP.FPDTDYKAVPLKIGEGEEYMLALKQELRETMKR
Retrocopy MAGNKGRGLVAYTFNIEAVGFSTGDKLPDVVLKPPP*FPDTDYKAVPLKIGEGEEYMLALKQELRETMKR

Parental  MPYFIETQEEKQDIERYSKR-YMKVYKEEWIPDWRRLPREMMPR-KSKKAGAKPQKAKNTVKGS-SITNS
          MPYFIETQEEKQDIERYSKR..MKVY....IPDWRRLPREMMPR.K.KKAGA..QKAKNTVKG..S..N.
Retrocopy MPYFIETQEEKQDIERYSKR<IMKVY--YLIPDWRRLPREMMPRKKQKKAGATSQKAKNTVKGN<SVSNT

Parental  ADVLKRIE
          ADVLKRIE
Retrocopy ADVLKRIE

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_2495 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2495 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.

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Parental genes homology:

Parental genes homology involve 14 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006306	1 retrocopy	retro_chof_125,
Callithrix jacchus	ENSCJAG00000010747	1 retrocopy	retro_cjac_2691,
Echinops telfairi	ENSETEG00000008379	1 retrocopy	retro_etel_1040,
Homo sapiens	ENSG00000113356	2 retrocopies	retro_hsap_1454, retro_hsap_1885,
Gorilla gorilla	ENSGGOG00000000266	2 retrocopies	retro_ggor_1119, retro_ggor_1382,
Myotis lucifugus	ENSMLUG00000014954	1 retrocopy	retro_mluc_2233,
Macaca mulatta	ENSMMUG00000018972	1 retrocopy	retro_mmul_1332,
Nomascus leucogenys	ENSNLEG00000013749	1 retrocopy	retro_nleu_1807,
Otolemur garnettii	ENSOGAG00000005560	1 retrocopy	retro_ogar_3512,
Pongo abelii	ENSPPYG00000015624	1 retrocopy	retro_pabe_1564,
Pan troglodytes	ENSPTRG00000017068	2 retrocopies	retro_ptro_1266, retro_ptro_989,
Rattus norvegicus	ENSRNOG00000016260	2 retrocopies	retro_rnor_458, retro_rnor_503,
Ictidomys tridecemlineatus	ENSSTOG00000008664	1 retrocopy	retro_itri_18,
Tupaia belangeri	ENSTBEG00000002278	2 retrocopies	retro_tbel_2495 , retro_tbel_3069,