RetrogeneDB ID: retro_tbel_1067

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_3752:35079..35421(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBXO27
• Ensembl ID: ENSTBEG00000010522
• Aliases: None
• Description: F-box protein 27 [Source:HGNC Symbol;Acc:18753]

Sequence

>retro_tbel_1067
GGCCTCCAGAAATAGATGGTGTAGCCCACTGGGGATGGCTGGGTGGTGGAGGAAAACATGACACTTATGCCTGGGGTCTC
TTTGCAGACCTGCTTTGTGCCTTTTTTCAGCTGGTGTGGCAAGAAGCAGGTCTTGGACCTGGAGGAGAAGGGTCTGTGGC
CAGAACTACTCAATAGTGACAGGATTGAGATCTGTGTCTCTGACTGGGGGGAAGCGTGCCCTGACTGTGGTTGTAGGTAC
CAGCTCCTTGACCAACTTCTTGATGCCAATCAGACTATCCTAGATAAATTCTCTGTTGTACCTGATCCCACCCAGCAGTG
GAACAATAATATCTATCTTCAA

Alignment

ORF - retro_tbel_1067 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.67 %
• Parental protein coverage: 70.37 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GLQQWVVQHGGHRWVVEENKTPVPGAPSQTCFVTSFSWCSKKQVLDLQEEGLWPELLDSDGIEIYVSDWW
          GLQ...V...G..WVVEEN.T..PG...QTCFV..FSWC.KKQVLDL.E.GLWPELL.SD.IEI.VSDW.
Retrocopy GLQK*MV*PTGDGWVVEENMTLMPGVSLQTCFVPFFSWCGKKQVLDLEEKGLWPELLNSDRIEICVSDWG

Parental  GARHDCGCEYQIRVQLLDARQTVLDEFFETPDPIQQWNNNINLQ
          .A..DCGC.YQ...QLLDA.QT.LD.F...PDP.QQWNNNI.LQ
Retrocopy EACPDCGCRYQLLDQLLDANQTILDKFSVVPDPTQQWNNNIYLQ

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_1067 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1067 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 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000004611	1 retrocopy	retro_cpor_1475,
Mustela putorius furo	ENSMPUG00000017748	3 retrocopies	retro_mputfur_1473, retro_mputfur_465, retro_mputfur_965,
Ictidomys tridecemlineatus	ENSSTOG00000027765	1 retrocopy	retro_itri_401,
Tupaia belangeri	ENSTBEG00000010522	1 retrocopy	retro_tbel_1067 ,
Tursiops truncatus	ENSTTRG00000009850	1 retrocopy	retro_ttru_1161,
Vicugna pacos	ENSVPAG00000004974	1 retrocopy	retro_vpac_470,