RetrogeneDB ID: retro_tbel_1205

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_4093:24509..24855(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C1orf192
• Ensembl ID: ENSTBEG00000015510
• Aliases: None
• Description: chromosome 1 open reading frame 192 [Source:HGNC Symbol;Acc:32325]

Sequence

>retro_tbel_1205
ATGGCCACTAACTGCGGTGCCAGCCAGTATGAGAAAACTTTCTCATCCAAGTATCTGCAGAACTGCCTCCCGCCAAGCCC
ACCAAGGAGAGGATCTCTCCCCATGAAGGCTACACTCAGATTATCACCAATGACCATGGTCATCTGTTGCCTTCAGTGCC
CTATTCAAGGCAAGTCCTTGGGGTTCCTTCATGGGCACTTGGCAAATGCTTCTGAGGATACCCACTGCCCAGATGACCCT
GGCCTACTGTACAACTGCTGGCGCCGCCTCCTTCACCAAGTGGATACAAAAAAATCCTGATTTACTCAAGGCCTCCAGTG
GGCTATGTCCTGCAATCTTAGGTGAG

Alignment

ORF - retro_tbel_1205 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.49 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MATNYSANQYEKAFSPKYLRNW-SPAKPTKERIPSHEGYTQIIANDRGHLLPSVPRS-KANLLSPFMGTW
          MATN..A.QYEK.FS.KYL.N...PAKPTKERI..HEGYTQII.ND.GHLLPSVP.S.KA.....FMGTW
Retrocopy MATNCGASQYEKTFSSKYLQNC<PPAKPTKERISPHEGYTQIITNDHGHLLPSVPYS<KASPWGSFMGTW

Parental  -LMPRIPPAPVTLTFCTAAGATSLTKWIQKNPDLLKASNGLRPEILGK
          ....RIP.A..TL..CT.AGA.S.TKWIQKNPDLLKAS.GL.P.ILG.
Retrocopy QMLLRIPTAQMTLAYCTTAGAASFTKWIQKNPDLLKASSGLCPAILGE

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_1205 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1205 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004753	1 retrocopy	retro_cjac_192,
Echinops telfairi	ENSETEG00000011522	1 retrocopy	retro_etel_834,
Tupaia belangeri	ENSTBEG00000015510	1 retrocopy	retro_tbel_1205 ,