RetrogeneDB ID: retro_tsyr_633

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_156760:1689..2009(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUS1
• Ensembl ID: ENSTSYG00000003212
• Aliases: None
• Description: nuclear undecaprenyl pyrophosphate synthase 1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:21042]

Sequence

>retro_tsyr_633
ATTTTCAAAAGAAATAATTCCAGATTAATGGATGAAATCTTAAAACAACAGTAGGAACTTCAGGCCTAGATTGTTCAAGA
TAGTCACTAGAGTTTGCAAGTAGTAATGACAAAGATGATCAAGTTTTAAATTGCCATTTGTCAGTGAAGGTGCTGTCCCC
AGAAGATGGAAAAGCAGATATTGTGAGAGCTGCTCATGGCTTTTGCCAGTTAGTAGCCCAGAAGCAAAAGAGATCAACAG
ATTTGGATATAGCTACATTAGACAGTTTACTTAGTTCCAATGGTTTCCCTGATCCTGATTTAGTATTGAAGTTTGGTCCC

Alignment

ORF - retro_tsyr_633 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.89 %
• Parental protein coverage: 69.48 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IFKRNNSRLMDEILKQQQELL-GLDCSKYSPEFASSNDKDDQVLNCHLAVKVLSPEDGKADIVRAAHDFC
          IFKRNNSRLMDEILKQQ.EL..GLDCS..S.EFASSNDKDDQVLNCHL.VKVLSPEDGKADIVRAAH.FC
Retrocopy IFKRNNSRLMDEILKQQ*ELQ<GLDCSR*SLEFASSNDKDDQVLNCHLSVKVLSPEDGKADIVRAAHGFC

Parental  QLVAQKQKRPADLDVDTLDSLLSSNGFPDPDLVLKFGP
          QLVAQKQKR..DLD..TLDSLLSSNGFPDPDLVLKFGP
Retrocopy QLVAQKQKRSTDLDIATLDSLLSSNGFPDPDLVLKFGP

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_633 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta 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.

---

Parental genes homology:

Parental genes homology involve 11 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000001780	1 retrocopy	retro_dnov_1639,
Erinaceus europaeus	ENSEEUG00000008948	1 retrocopy	retro_eeur_443,
Homo sapiens	ENSG00000153989	4 retrocopies	retro_hsap_1174, retro_hsap_1176, retro_hsap_1289, retro_hsap_4825,
Gorilla gorilla	ENSGGOG00000022321	4 retrocopies	retro_ggor_1012, retro_ggor_914, retro_ggor_915, retro_ggor_993,
Microcebus murinus	ENSMICG00000007831	1 retrocopy	retro_mmur_423,
Nomascus leucogenys	ENSNLEG00000013457	1 retrocopy	retro_nleu_2411,
Oryctolagus cuniculus	ENSOCUG00000011553	1 retrocopy	retro_ocun_1713,
Pongo abelii	ENSPPYG00000025886	1 retrocopy	retro_pabe_81,
Pan troglodytes	ENSPTRG00000018547	1 retrocopy	retro_ptro_808,
Tarsius syrichta	ENSTSYG00000003212	1 retrocopy	retro_tsyr_633 ,
Tursiops truncatus	ENSTTRG00000007352	2 retrocopies	retro_ttru_358, retro_ttru_684,