RetrogeneDB ID: retro_tsyr_850

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_218104:3172..3736(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PEX3
• Ensembl ID: ENSTSYG00000000277
• Aliases: None
• Description: peroxisomal biogenesis factor 3 [Source:HGNC Symbol;Acc:8858]

Sequence

>retro_tsyr_850
GCTGTGCAGAACATTTTAGGAAGTGTTTCTCTTAGACATTCTTTGTCCCTTCTGGACTTGGAGCAAAAAAGAAAAAAAAT
CAGAAATCTCGTTGAGCAGCATAAATCTTCTTCCTGGATTAATAAAGATGGATCCAAATCTTTATTATGCCATTATATGA
TGCCAGATGAAGAGACCCCATTAGCAGTTCAGGCCTGTGGGCTTTCTCCACAAGATATTACCACTATTAAACTTCTCAAT
GAAACTAAAGACATGTTAGAAAGCCCAGATGTTAGTACAATTTTGAATACCTGTTTAAACCGAGGTTTTAGCAGACTTCT
AGACAATATGGCTGAGTTCTTTCGATCTACTGAACAGGACCTGCAACATAGTAATTCTATGGATAGTCTTTCCAGTGTCA
GCCTGCCTTTAGCTAAGATAATCCCGATAGTAAATGGACAGATCCATTCAGTCTGCTGCAAAACACCCAGTCATTTTGTT
CAGGATCTGTTGACGATAGAGCAAGTGAAGGACTTTGCTGCTAATGTATATGAGGCTTTCAGTACCCCTCAGCAACTGGA
GAAA

Alignment

ORF - retro_tsyr_850 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.49 %
• Parental protein coverage: 50.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AVQKILGSVSLKHSLSLLDLEQSLKEIRNLVEQHKSSSWINKDGSKSLLCHYMMPDEETPLAVQACGLSP
          AVQ.ILGSVSL.HSLSLLDLE......RNLVEQHKSSSWINKDGSKSLLCHYMMPDEETPLAVQACGLSP
Retrocopy AVQNILGSVSLRHSLSLLDLEXXXXXXRNLVEQHKSSSWINKDGSKSLLCHYMMPDEETPLAVQACGLSP

Parental  RDITTIKLLNETRDMLESPDFSTVLNTCLNRGFSRLLDNMAEFFRPTEQDLQHSNSMDSLSSVSLPLAKI
          .DITTIKLLNET.DMLESPD.ST.LNTCLNRGFSRLLDNMAEFFR.TEQDLQHSNSMDSLSSVSLPLAKI
Retrocopy QDITTIKLLNETKDMLESPDVSTILNTCLNRGFSRLLDNMAEFFRSTEQDLQHSNSMDSLSSVSLPLAKI

Parental  IPIVNGQIHSVCSETPSHFVQDLLTMEQVKDFAANVYEAFSTPQQLEK
          IPIVNGQIHSVC..TPSHFVQDLLT.EQVKDFAANVYEAFSTPQQLEK
Retrocopy IPIVNGQIHSVCCKTPSHFVQDLLTIEQVKDFAANVYEAFSTPQQLEK

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_850 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 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000000277	2 retrocopies	retro_tsyr_1519, retro_tsyr_850 ,