RetrogeneDB ID: retro_tbel_1071

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_3756:91237..91725(-)
• Located in intron of: ENSTBEG00000003831

Retrocopy information

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

Parental gene information

• Parental gene symbol: CEP19
• Ensembl ID: ENSTBEG00000007288
• Aliases: None
• Description: centrosomal protein 19kDa [Source:HGNC Symbol;Acc:28209]

Sequence

>retro_tbel_1071
ATGATGTGCACTGCCAAGAACTGTGGAATTAGATTCCAGTCTCCAGCTATCATCTTAATTTATGAAAATGAAATCAAGGG
GAAAAGTCACCAACGTATCATGCCAGTCTGAAACTTTTCAAAGTTTTCAGACTGTACCAGAGCTGCTGAACAGTTAAAGA
ATAATCCACCGCACGAGAGTTACCTGGAACAAGTATCCCTGAGACAATTAGAGAAGTTATTCTTTTTTTTTTTTTAACGA
GGTTATTTACGGGGGCAGAGTTTGGCAGAAACAATGGAACAAATTAAACGGGAAACAACTACTGATCCTGAGGAAGACCT
GAACAAACTAGATGACAAGGAGCTTGCCAAAAGGAAGAGCATCATGGACGAGCTTTTCGAGAAAAACCAGAAGGATGATC
CAGACTTTGTGTATGACACTGAGGTGAGTTCCCACAGGATGAACAGCTGCCGTCCTGTGGCTGGGACACAGACTCGGCCG
GTGAGTTC

Alignment

ORF - retro_tbel_1071 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.75 %
• Parental protein coverage: 98.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MMCTAKKCGIRFQPPAIILIYENEIKGKSRQRIMPVRNFSKFSDCTRAAEQLKNNPRHKSYLEQVSLRQL
          MMCTAK.CGIRFQ.PAIILIYENEIKGKS.QRIMPV.NFSKFSDCTRAAEQLKNNP.H.SYLEQVSLRQL
Retrocopy MMCTAKNCGIRFQSPAIILIYENEIKGKSHQRIMPV*NFSKFSDCTRAAEQLKNNPPHESYLEQVSLRQL

Parental  EKLF--CFLRGYLRGQSLAETMEQIKRETTIDPEEELNKLDDKELAKRKSIMDELFKKKQKKKDDPDFVY
          EKLF.....RGYLRGQSLAETMEQIKRETT.DPEE.LNKLDDKELAKRKSIMDELF.K.Q..KDDPDFVY
Retrocopy EKLFXXXXXRGYLRGQSLAETMEQIKRETTTDPEEDLNKLDDKELAKRKSIMDELFEKNQ--KDDPDFVY

Parental  DIEV-EFPQDEQLQSCGWDTESADEF
          D.EV.EFPQDEQL.SCGWDT.SA.EF
Retrocopy DTEV<EFPQDEQLPSCGWDTDSAGEF

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_1071 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1071 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 1 parental gene, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000007288	3 retrocopies	retro_tbel_1071 , retro_tbel_3355, retro_tbel_4541,