RetrogeneDB ID: retro_tbel_4738

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_99940:7201..7521(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB10
• Ensembl ID: ENSTBEG00000016698
• Aliases: None
• Description: RAB10, member RAS oncogene family [Source:HGNC Symbol;Acc:9759]

Sequence

>retro_tbel_4738
GGTAAAAGTTTTGAAAACATCAGCAAATGGCTTAGAAACATAGGTAACCATGCCGAAGAAGATGTGGAAAGAATGTGAGT
AAGCAACAAGTGTGATATGGATGATAAAAAAGTTGTACCTAAAAGAAAAGGAGAACAGATCACAAAGGAACATGATACTA
GATTTTTTGAGATTAGTGCAAAAACAAATTAAACATCGAAAAGGCGTTCCTCACATTAACCAAGGATATCCTTCAAAAGA
CCCTTGTAAACGAGCCCAACAGTGAAAATGCAGACCTGAGCAGTGGAGGCAGCCTGACGGGCTGGAACAGCAAATGCTGC

Alignment

ORF - retro_tbel_4738 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.93 %
• Parental protein coverage: 53.5 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GKSFENISKWLRNIDEHANEDVERMLLGNKCDMDDKRVVPKGKGEQIAREHGIRFFETSAKAN-INIEKA
          GKSFENISKWLRNI..HA.EDVERM...NKCDMDDK.VVPK.KGEQI..EH..RFFE.SAK.N..NIEKA
Retrocopy GKSFENISKWLRNIGNHAEEDVERM*VSNKCDMDDKKVVPKRKGEQITKEHDTRFFEISAKTN<LNIEKA

Parental  FLTLAEDILRKTPVKEPNSENVDISSGGGVTGWKSKCC
          FLTL..DIL.KT.V.EPNSEN.D.SSGG..TGW.SKCC
Retrocopy FLTLTKDILQKTLVNEPNSENADLSSGGSLTGWNSKCC

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_4738 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4738 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000003959	1 retrocopy	retro_cint_21,
Echinops telfairi	ENSETEG00000010795	1 retrocopy	retro_etel_661,
Myotis lucifugus	ENSMLUG00000009937	1 retrocopy	retro_mluc_2453,
Monodelphis domestica	ENSMODG00000015821	1 retrocopy	retro_mdom_1577,
Tupaia belangeri	ENSTBEG00000016698	1 retrocopy	retro_tbel_4738 ,