RetrogeneDB ID: retro_tbel_2253

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_107167:3701..4283(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000013377
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: WDR77
• Ensembl ID: ENSTBEG00000010325
• Aliases: None
• Description: WD repeat domain 77 [Source:HGNC Symbol;Acc:29652]

Sequence

>retro_tbel_2253
ATGCGGAAGGAAACTCCACCTCCCTTAGTGCCCCCGGCGGCCCGCGAATGGAACCTTCCCCCTAATGCCCCCGCCTGTAT
GGAACGGCAGTTGGAGGCTGCGCGGTATCGGTCCGATGGGGCGCTTCTGCTCGGGGCCTCCAGCCTCAGTGGCCGCTGCT
GGGCCGGCTCTCTTTGGCTTTTCAAGGACCCTTGTGCTGCCCCCAACGAAGGCTTCTGCTCCGCCGGAGTCCAGACGGAG
GCCGGAGTGGCTGACCTCACTTGGGTGGGGGACAGAGGTATCTTAGTGGCTTCTGATTCAGGTGCTGTTGAATTGTGGGA
GCTGGATGAGAACGAAACTCTTATTGTCAGCAAGTTCTGCAAGTATGAGCATGATGACATCGTGTCTACAGTCAGTGTCC
TGAGCTCTGGCCACGCAAGCTGTCAGTGGTAGCAAAGACTTTCTGCATCAAGGTTTGGGACCTTGCTCAGCAAACGGTAC
TGGAATTCATACCGAGCTCATGCTGGGCAGGTTACCTGCGTTGCTGCCTCTCCTCAAAGGATTCGTGGTTCTTTCATGCA
GTGAGACAACAGAATTTTACTG

Alignment

ORF - retro_tbel_2253 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.0 %
• Parental protein coverage: 56.73 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  MRKETPPPLVPPAAREWNLPPNAPACMERQLEAARYRSDGALLLGASSLSGRCWAGSLWLFKDPCAAPNE
          MRKETPPPLVPPAAREWNLPPNAPACMERQLEAARYRSDGALLLGASSLSGRCWAGSLWLFKDPCAAPNE
Retrocopy MRKETPPPLVPPAAREWNLPPNAPACMERQLEAARYRSDGALLLGASSLSGRCWAGSLWLFKDPCAAPNE

Parental  GFCSAGVQTEAGVADLTWVGDRGILVASDSGAVELWELDENETLIVSKFCKYEHDDIVSTVSVLSSG-TQ
          GFCSAGVQTEAGVADLTWVGDRGILVASDSGAVELWELDENETLIVSKFCKYEHDDIVSTVSVLSSG.TQ
Retrocopy GFCSAGVQTEAGVADLTWVGDRGILVASDSGAVELWELDENETLIVSKFCKYEHDDIVSTVSVLSSG>TQ

Parental  AVSGSKD-FCIKVWDLAQQTVL-NSYRAHAGQVTCVAASPH-KDS-VFLSCSE-DNRILL
          AVSGSKD.FCIKVWDLAQQTVL.NSYRAHAGQVTCVAASP..KDS.V.LSCSE.DNRILL
Retrocopy AVSGSKD>FCIKVWDLAQQTVL>NSYRAHAGQVTCVAASPQ<KDS<VVLSCSE<DNRILL

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_2253 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2253 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 13 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014102	1 retrocopy	retro_btau_1342,
Choloepus hoffmanni	ENSCHOG00000013829	1 retrocopy	retro_chof_2618,
Callithrix jacchus	ENSCJAG00000013344	2 retrocopies	retro_cjac_1166, retro_cjac_3063,
Dasypus novemcinctus	ENSDNOG00000006521	1 retrocopy	retro_dnov_695,
Homo sapiens	ENSG00000116455	1 retrocopy	retro_hsap_2995,
Gorilla gorilla	ENSGGOG00000005208	1 retrocopy	retro_ggor_2076,
Macaca mulatta	ENSMMUG00000003311	1 retrocopy	retro_mmul_1917,
Mus musculus	ENSMUSG00000000561	1 retrocopy	retro_mmus_1120,
Nomascus leucogenys	ENSNLEG00000003918	1 retrocopy	retro_nleu_746,
Oryctolagus cuniculus	ENSOCUG00000007801	1 retrocopy	retro_ocun_535,
Pongo abelii	ENSPPYG00000001033	1 retrocopy	retro_pabe_2482,
Pan troglodytes	ENSPTRG00000001098	1 retrocopy	retro_ptro_2026,
Tupaia belangeri	ENSTBEG00000010325	1 retrocopy	retro_tbel_2253 ,