RetrogeneDB ID: retro_tbel_1567

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_5091:158935..159415(-)
• Located in intron of: ENSTBEG00000016173

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNRF2
• Ensembl ID: ENSTBEG00000015445
• Aliases: None
• Description: zinc and ring finger 2 [Source:HGNC Symbol;Acc:22316]

Sequence

>retro_tbel_1567
CTCGGGGAGGCCTTGCTCAGCTGATGTCAGAGTGGGGTGCCCATACAATCTTCCTTCAGCACCCCTAGCAACAGTAGCAG
CCACTGGGGCTCCCAAGAGGCAGTGCACAGCAATTACAGAGATGGCAGTGGCAGTGATAGGGACTAGCCTGTCAGAGGGG
ACCCCGTGGGCCATGCCTGGTGATTAGCTCCTTAACAGCAAACCTATCATGGGACATGTTTGAAGAATTTAAGTGCCCCG
TGTGCTCAAAATTTGTACCCCCAGATGACTTGGATGTGTGTCTTGTGATGTGTTTAACAAAGCCAATGATAACCTGCAAT
GAGGATATAATGAGTAAGGATGTTGGGAGGATGCAATGTGCCTTGAAGAATTGCAGTGGGGGATACTGTAGCAGGACTGC
CTTGTCTGTGTATGTACCATAAAGGCTACCTGGGTGAATGGTTTGATGTAAATAGATCTTAACCTTAGCACTACTCAGAT

Alignment

ORF - retro_tbel_1567 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.59 %
• Parental protein coverage: 67.8 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LGGAVGSVASGARAAQSSFSIPNSSSGPYGSQDSVHSSPEDGGGG-RDRPAAG-GPGGPRLVIGSLPAHL
          LG.A..S........QSSFS.P..SS...GSQ..VHS...DG.G..RD.P..G.GP.GP.LVI.SL.A.L
Retrocopy LGEALLS*CQSGVPIQSSFSTPSNSSSHWGSQEAVHSNYRDGSGSDRD*PVRG<GPRGPCLVISSLTANL

Parental  SPHMFGGFKCPVCSKFVPSDEMDLHLVMCLTKPRITYNEDVLSKDAG-ECAICLEELQ-QGDTIARLPCL
          S..MF..FKCPVCSKFVP.D..D..LVMCLTKP.IT.NED..SKD.G.E.A.CLEELQ..GDT.A.LPCL
Retrocopy SWDMFEEFKCPVCSKFVPPDDLDVCLVMCLTKPMITCNEDIMSKDVG<EDAMCLEELQ<VGDTVAGLPCL

Parental  CIYHKGCIDEWFEVNRSCPEHPSD
          C.YHKG...EWF.VNRS.P.H.SD
Retrocopy CMYHKGYLGEWFDVNRS*P*HYSD

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_1567 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1567 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 1 parental gene, and 35 retrocopies.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000015445	35 retrocopies	retro_tbel_1132, retro_tbel_1567 , retro_tbel_1587, retro_tbel_1588, retro_tbel_1666, retro_tbel_2108, retro_tbel_2209, retro_tbel_2225, retro_tbel_2251, retro_tbel_2307, retro_tbel_2343, retro_tbel_2360, retro_tbel_2387, retro_tbel_2401, retro_tbel_2405, retro_tbel_2438, retro_tbel_2451, retro_tbel_2556, retro_tbel_3161, retro_tbel_3366, retro_tbel_3730, retro_tbel_3769, retro_tbel_3771, retro_tbel_4080, retro_tbel_4106, retro_tbel_4153, retro_tbel_4166, retro_tbel_4233, retro_tbel_4410, retro_tbel_4485, retro_tbel_4511, retro_tbel_4528, retro_tbel_4587, retro_tbel_4686, retro_tbel_4716,