RetrogeneDB ID: retro_tsyr_108

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_2990:12807..13490(+)
• Located in intron of: ENSTSYG00000001616

Retrocopy information

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

Parental gene information

• Parental gene symbol: NFU1
• Ensembl ID: ENSTSYG00000013765
• Aliases: None
• Description: NFU1 iron-sulfur cluster scaffold homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:16287]

Sequence

>retro_tsyr_108
TTGAAGAATCCATACAGCATTAAGAAACAGCCTCTGCATCAGTTTGTACGAAGACCACTTTCCCTACTACCTGCAGTCTT
ATGTAGCACAGTGAGACACATGTTTATTCAAACACAAGATACCCCAAATCCCAACAGTTTAAAGTTTATACCAGGAAAGC
CAGTTCTTGAGGCAAGGACCATGGATTTTCCCACCCCAGCCGCAGCATTTCGCTCCCCTCTGGCAAGGCGATTATTTAGA
ATCGGAGGAGTAAAAAGTGTCTTCTTTGGATCAGATTTTATTACTGTCACAAAGGAAAATGAAGAATTAGACTGGAATTT
ATTGAAACCAGATATGTATGCAACAATCATGGACTTTTTGCATCTGGCTTACTCCTTGTTACTGAGGAAACATCTTTGGG
AGAAGCAGGATCTTAAGAAGATGATGAAGTTGTGGCAATGATTAAGGAATTGTTAGATACTAGAATATGGCCAACTGTGC
AGGAAGATGGAGGAGACGTAATCTATAAAGGCTTTGAAGATGGCATCGTACAGCTGAAACTTCAAGGTTCTTGTACCAGT
TGCCCCAGTTCAATCATTACTTTGAAAACTGGAATTCAGAACATGCTACAGTTTTATATTCCCGAAGTAGAAGGTGTAGA
AGAGGTTATGGATGATGAATCAGATGAAAAAGCAGCAAACTCA

Alignment

ORF - retro_tsyr_108 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.65 %
• Parental protein coverage: 91.16 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LKNPYTIKKQPL-QFVQRLFFPLLVALSNTVRHMFIQTQDTPNPNSLKFIPGKPVLETRTMDFPTPAAAF
          LKNPY.IKKQPL.QFV.R....L...L..TVRHMFIQTQDTPNPNSLKFIPGKPVLE.RTMDFPTPAAAF
Retrocopy LKNPYSIKKQPLHQFVRRPLSLLPAVLCSTVRHMFIQTQDTPNPNSLKFIPGKPVLEARTMDFPTPAAAF

Parental  RSPLARQLFRIEGVKSVFFGPDFITVTKENEELDWNLLKPDIYATIMDF-FASGLPLVTEETTSGEAGSE
          RSPLAR.LFRI.GVKSVFFG.DFITVTKENEELDWNLLKPD.YATIMDF.FASGL.LVTEET..GEAGS.
Retrocopy RSPLARRLFRIGGVKSVFFGSDFITVTKENEELDWNLLKPDMYATIMDF<FASGLLLVTEETSLGEAGS*

Parental  EDDEVVAMIKELLDTRIRPTVQEDGGDVIYKGFEDGIVQLKLQGSCTSCPSSIITLKNGIQNMLQFYIPE
          EDDEVVAMIKELLDTRI.PTVQEDGGDVIYKGFEDGIVQLKLQGSCTSCPSSIITLK.GIQNMLQFYIPE
Retrocopy EDDEVVAMIKELLDTRIWPTVQEDGGDVIYKGFEDGIVQLKLQGSCTSCPSSIITLKTGIQNMLQFYIPE

Parental  VEGVEQVMDDESDEKEANS
          VEGVE.VMDDESDEK.ANS
Retrocopy VEGVEEVMDDESDEKAANS

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_108 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 14 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005978	1 retrocopy	retro_chof_456,
Callithrix jacchus	ENSCJAG00000019156	1 retrocopy	retro_cjac_1573,
Echinops telfairi	ENSETEG00000019002	1 retrocopy	retro_etel_1371,
Homo sapiens	ENSG00000169599	1 retrocopy	retro_hsap_2638,
Macaca mulatta	ENSMMUG00000000435	1 retrocopy	retro_mmul_1524,
Monodelphis domestica	ENSMODG00000011805	1 retrocopy	retro_mdom_1395,
Mustela putorius furo	ENSMPUG00000006663	1 retrocopy	retro_mputfur_67,
Mus musculus	ENSMUSG00000029993	1 retrocopy	retro_mmus_1401,
Nomascus leucogenys	ENSNLEG00000010101	1 retrocopy	retro_nleu_646,
Ochotona princeps	ENSOPRG00000016760	2 retrocopies	retro_opri_380, retro_opri_48,
Pongo abelii	ENSPPYG00000012339	1 retrocopy	retro_pabe_2329,
Pan troglodytes	ENSPTRG00000012016	1 retrocopy	retro_ptro_1778,
Tupaia belangeri	ENSTBEG00000008616	1 retrocopy	retro_tbel_525,
Tarsius syrichta	ENSTSYG00000013765	1 retrocopy	retro_tsyr_108 ,