RetrogeneDB ID: retro_tbel_4595

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_92450:6568..6890(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000016417
• Aliases: None
• Description: None

Sequence

>retro_tbel_4595
ATGGACGAACAGATTTGTTTAGAGCTGCAGAACAGGATGCCTTCTGATGTGAAAGAGCTTGTCCTAGACAACTGTTGGTT
GAATGAAGGCAAAATTGAAGGCCTCACAGATAAAGTTGAAGAACTGATATTCTTAAGTACAATCAACAAAAGCTTATCAT
CAGTCACAAACTTACCAGAGTTAAACAAACTTAAGAAGCTTAAACTAAGCGATAACAGACCCTCAAAGGGACCTGGAAGT
ATTGGCAGAAAAGTGTCCTAATGTCATGCATTTAAATTTAAGTGACAACAAAATTAGAGACCTCAGCACAATAGAGACAC
TG

Alignment

ORF - retro_tbel_4595 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.7 %
• Parental protein coverage: 53.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MDKRIHLELRNRTPSDVKELVLDNCRSNEGKIEGLTDEFEELEFLSTINVGLTSVANLPKLNKLKKLELS
          MD..I.LEL.NR.PSDVKELVLDNC..NEGKIEGLTD..EEL.FLSTIN..L.SV.NLP.LNKLKKL.LS
Retrocopy MDEQICLELQNRMPSDVKELVLDNCWLNEGKIEGLTDKVEELIFLSTINKSLSSVTNLPELNKLKKLKLS

Parental  DNRISGG-LEVLAEKCPNLTHLNLSGNKIRDLSTIEPL
          DNR.S.G.LEVLAEKCPN..HLNLS.NKIRDLSTIE.L
Retrocopy DNRPSKG>LEVLAEKCPNVMHLNLSDNKIRDLSTIETL

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_4595 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4595 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 31 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002339	2 retrocopies	retro_cjac_3305, retro_cjac_3799,
Dasypus novemcinctus	ENSDNOG00000015360	5 retrocopies	retro_dnov_1199, retro_dnov_1250, retro_dnov_1696, retro_dnov_836, retro_dnov_956,
Felis catus	ENSFCAG00000015773	1 retrocopy	retro_fcat_1188,
Homo sapiens	ENSG00000140350	3 retrocopies	retro_hsap_1479, retro_hsap_3117, retro_hsap_48,
Gorilla gorilla	ENSGGOG00000015417	1 retrocopy	retro_ggor_1134,
Nomascus leucogenys	ENSNLEG00000013347	2 retrocopies	retro_nleu_15, retro_nleu_2383,
Pongo abelii	ENSPPYG00000006595	2 retrocopies	retro_pabe_210, retro_pabe_2575,
Pan troglodytes	ENSPTRG00000007219	2 retrocopies	retro_ptro_2108, retro_ptro_758,
Rattus norvegicus	ENSRNOG00000045651	1 retrocopy	retro_rnor_1043,
Sarcophilus harrisii	ENSSHAG00000010906	1 retrocopy	retro_shar_540,
Tupaia belangeri	ENSTBEG00000001989	1 retrocopy	retro_tbel_918,
Tupaia belangeri	ENSTBEG00000002189	8 retrocopies	retro_tbel_1659, retro_tbel_2710, retro_tbel_2772, retro_tbel_3770, retro_tbel_3863, retro_tbel_4351, retro_tbel_4361, retro_tbel_491,
Tupaia belangeri	ENSTBEG00000016417	2 retrocopies	retro_tbel_4078, retro_tbel_4595 ,