RetrogeneDB ID: retro_tbel_2669

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_116019:99916..100271(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C11orf31
• Ensembl ID: ENSTBEG00000002977
• Aliases: None
• Description: chromosome 11 open reading frame 31 [Source:HGNC Symbol;Acc:18251]

Sequence

>retro_tbel_2669
GCCTCCCATTGGAGAAAGTGGAAGGCTGGGGCCATGATGACTGGGCTGCCAAGAAGTGGGAGAAGCTAGAGAATGGCAAG
GACAGAGAGAAAGAGGCAAGCATTGTTATTGAGTATTGCATAAGCTAACATGTCTATGAGCACAATGCTATTGCTTTGAA
CCAGGTACTGTTCCTGGAGGCTGCAGAGATTCTAGGGAGGTGCACTCTGCCAAGCCTTTGAGAGGGAGCTTGAAGTGATG
CTGCTATACCAGGATGGCAGCAGTATGGAGCTCTGGACTAGTGTTAAGAAGAGGTCCTCCATGCAAACTCAAATTCCCTG
AGCATCAAGAGGTAGAGGAACAGTAGAAGTACTTT

Alignment

ORF - retro_tbel_2669 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.72 %
• Parental protein coverage: 97.52 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  APRGRKRKAEAAVVA-TAEKQEKLQNGGEGVKEASIVIEHCTS-RVYGRNAAALSQALRLEAPEL-PVKV
          A...RK.KA.A......A.K.EKL.NG....KEASIVIE.C.S..VY..NA.AL.Q.L.LEA.E.....V
Retrocopy ASHWRKWKAGAMMTG<AAKKWEKLENGKDREKEASIVIEYCIS*HVYEHNAIALNQVLFLEAAEI<SREV

Parental  NSAKPRRGS-FEVTLLRPDGSSVELWTGIKK-GPPRKLKFPEPQEVVEELKKY
          .SAKP.RGS..EV.LL..DGSS.ELWT..KK.GPP.KLKFPE.QEV.E..K..
Retrocopy HSAKPLRGS<LEVMLLYQDGSSMELWTSVKK>GPPCKLKFPEHQEVEEQ*KYF

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_2669 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2669 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000025100	1 retrocopy	retro_dnov_779,
Tupaia belangeri	ENSTBEG00000002977	1 retrocopy	retro_tbel_2669 ,