RetrogeneDB ID: retro_tbel_3656

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_147980:311138..311507(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SURF1
• Ensembl ID: ENSTBEG00000001205
• Aliases: None
• Description: surfeit 1 [Source:HGNC Symbol;Acc:11474]

Sequence

>retro_tbel_3656
GTGATGGACCAGCCCATCCCTCTGCCAACAGACCCGATAGAACCACAGAATCTGGAAATTAGACCTGTGGGGGTCAGGGG
AACTTGGATCACTCCAGGGAGTTGTCCATGATGCCCTAGACCATGATGAACCCTGCCCTGGATGCCCTAGACGGGGGCTA
GGTCTCATCCTCAACTGAGAGCTGGGCATATGTGGTCACCTCCTTCCACTGCACTGACCTGGGGATCACTGTCCTGGTAA
ATAGAGAGTTTGTCCCCATGGAGAAAGTGAATCCTGATACCCGGCAGAAAGGCCAGATTGAGGGAGAAGTGGACCCCTTT
GGAATGGTGAGGCTTAACAGAAACCAGGAAGCCCTTCGTCCCTGAGAAC

Alignment

ORF - retro_tbel_3656 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.6 %
• Parental protein coverage: 51.46 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VMAEPIPLPADPMELKNLEYRPVRVKG-HFDHSKELYMMPRTMVDPVREAREAGRITSSSESGAYVVTPF
          VM..PIPLP.DP.E..NLE.RPV.V.G...DHS.EL.MMP.TM..P...A...G...SS.ES.AYVVT.F
Retrocopy VMDQPIPLPTDPIEPQNLEIRPVGVRG<NLDHSRELSMMP*TMMNPALDALDGG*VSSSTESWAYVVTSF

Parental  HCTELGTTILVNRGFVPRKKVNPDTRQKGQIEGEVDLVGMVR-LTETRKPFVPEN
          HCT.LG.T.LVNR.FVP..KVNPDTRQKGQIEGEVD..GMVR.LTETRKPFVPEN
Retrocopy HCTDLGITVLVNREFVPMEKVNPDTRQKGQIEGEVDPFGMVR>LTETRKPFVPEN

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_3656 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3656 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000007597	1 retrocopy	retro_mmur_407,
Tupaia belangeri	ENSTBEG00000001205	2 retrocopies	retro_tbel_3656 , retro_tbel_3841,