RetrogeneDB ID: retro_tbel_1659

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_5406:66169..66598(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANP32B
• Ensembl ID: ENSTBEG00000002189
• Aliases: None
• Description: acidic (leucine-rich) nuclear phosphoprotein 32 family, member B [Source:HGNC Symbol;Acc:16677]

Sequence

>retro_tbel_1659
GTAAAAGAGCTTGTCCTGGACAATTGTTGGTCGAGTGAAGGCAAAATCCAAGGCCTCACAGATGAATCTGAGGAACTGGA
ATTCTTAAGTACAATCAACGTAGGCCTCACCTCAGTCACAAACTTACCAAAGTGAAACAAAACTTAAGAAACTTGAACTA
AGCGACAACAGAATCTCGGGGGGCCTGGCAGTATTGGCAGAAAAGTGTCCTAACCTCACGCATCTAAATCTAAGTGGCAA
CAAAATTAGAGACCTCAGAACAATGGAGCCCTGGAAAAAGTTGGAAAACCTCAAGAGCGTAGGCCTTTTCAACGGCGAGG
TGACCAACCTGAACGACTACCGAGAAAACGTGTCCAAGCAGCTCCCCCAGCTCACAGACTTCGACGACTACGCCCGGGAT
GACAAGGAGGCCCCGACTCAGACCCTGAG

Alignment

ORF - retro_tbel_1659 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.03 %
• Parental protein coverage: 60.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VRELVLDNCKSSDGKIEGLTAEFVNLEFLSLINVGLISVSNLPK-LPKLKKLELSENRVYGGLDMLAEKL
          V.ELVLDNC.SS.GKI.GLT.E...LEFLS.INVGL.SV.NLPK...KLKKLELS.NR..GGL..LAEK.
Retrocopy VKELVLDNCWSSEGKIQGLTDESEELEFLSTINVGLTSVTNLPK>ETKLKKLELSDNRISGGLAVLAEKC

Parental  PNLTHLNLSGNKLKDISTLEPLKKLEFLKSLDLFNCEVTNLNDYRESVFRLLPQLTYLDGYDREDREA-P
          PNLTHLNLSGNK..D..T.EP.KKLE.LKS..LFN.EVTNLNDYRE.V...LPQLT..D.Y.R.D.EA.P
Retrocopy PNLTHLNLSGNKIRDLRTMEPWKKLENLKSVGLFNGEVTNLNDYRENVSKQLPQLTDFDDYARDDKEA<P

Parental  DSDAE
          DSD.E
Retrocopy DSDPE

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_1659 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1659 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 20 parental genes, and 46 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005149	6 retrocopies	retro_chof_1293, retro_chof_1456, retro_chof_19, retro_chof_2244, retro_chof_588, retro_chof_681,
Cavia porcellus	ENSCPOG00000020118	3 retrocopies	retro_cpor_1336, retro_cpor_493, retro_cpor_509,
Equus caballus	ENSECAG00000012310	2 retrocopies	retro_ecab_246, retro_ecab_826,
Echinops telfairi	ENSETEG00000015514	4 retrocopies	retro_etel_2053, retro_etel_2167, retro_etel_510, retro_etel_677,
Homo sapiens	ENSG00000136938	2 retrocopies	retro_hsap_1597, retro_hsap_1603,
Myotis lucifugus	ENSMLUG00000004844	2 retrocopies	retro_mluc_1787, retro_mluc_1788,
Macaca mulatta	ENSMMUG00000012242	1 retrocopy	retro_mmul_2600,
Monodelphis domestica	ENSMODG00000003261	1 retrocopy	retro_mdom_763,
Mustela putorius furo	ENSMPUG00000006433	1 retrocopy	retro_mputfur_1392,
Mus musculus	ENSMUSG00000028333	1 retrocopy	retro_mmus_2399,
Nomascus leucogenys	ENSNLEG00000016941	1 retrocopy	retro_nleu_3009,
Otolemur garnettii	ENSOGAG00000006091	2 retrocopies	retro_ogar_1915, retro_ogar_3282,
Pongo abelii	ENSPPYG00000019430	2 retrocopies	retro_pabe_1312, retro_pabe_1316,
Pan troglodytes	ENSPTRG00000021172	3 retrocopies	retro_ptro_1073, retro_ptro_1075, retro_ptro_40,
Pteropus vampyrus	ENSPVAG00000006569	1 retrocopy	retro_pvam_699,
Sorex araneus	ENSSARG00000000804	1 retrocopy	retro_sara_549,
Tupaia belangeri	ENSTBEG00000001989	1 retrocopy	retro_tbel_918,
Tupaia belangeri	ENSTBEG00000002189	8 retrocopies	retro_tbel_1659 , retro_tbel_2710, retro_tbel_2772, retro_tbel_3770, retro_tbel_3863, retro_tbel_4351, retro_tbel_4361, retro_tbel_491,
Tupaia belangeri	ENSTBEG00000016417	2 retrocopies	retro_tbel_4078, retro_tbel_4595,
Tursiops truncatus	ENSTTRG00000010825	2 retrocopies	retro_ttru_1899, retro_ttru_341,