RetrogeneDB ID: retro_tsyr_739

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_18611:3061..3512(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: POLR1C
• Ensembl ID: ENSTSYG00000011921
• Aliases: None
• Description: polymerase (RNA) I polypeptide C, 30kDa [Source:HGNC Symbol;Acc:20194]

Sequence

>retro_tsyr_739
ATCCTCACTGCCCAGCTGCGACCTGGCCAGGAGACTGACTTGCTCATGCGTTGTGCCAAGGGCATGGGCAAAGATCATGC
TAAGTGTTCCACCAGTGGTGACAGCTAGTTGCAGGCTCTTACCAGACATCACCCTGCTTGAGCCCGTGGAAGGGGAGGCA
GCTGAGGAGTTGAGGCGGTGCTTCTCGCCTGGAGTTATTGAGGTGCAGGAAGACCCAGGCAAAAAGGTTGCCAGAGTTGC
CAACCCCCGGCTGGATACATTCAGCGGGGAAATCTTCCGGAATGAAAAGCCAAAGAAGGTTGTATGACTTGCGTGGGTTC
GAGATCATGATATATTCTCGGTGGAGTCAACAGGGGTGTTGCCACAAGACGTGCTGGTGAGTGAAGCCATCAAAGTCCTG
ATGGGGAAGTGTCGGCGGTTCCTGGATGAACTGGATGCAGTTCAGATGGAC

Alignment

ORF - retro_tsyr_739 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.74 %
• Parental protein coverage: 50.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ILIAQLRPGQEIDLLMHCVKGIGKDHAKFS-PVATASYRLLPDITLLEPVEGEAAEELRRCFSPGVIEVQ
          IL.AQLRPGQE.DLLM.C.KG.GKDHAK.S.PV.TAS.RLLPDITLLEPVEGEAAEELRRCFSPGVIEVQ
Retrocopy ILTAQLRPGQETDLLMRCAKGMGKDHAKCS>PVVTASCRLLPDITLLEPVEGEAAEELRRCFSPGVIEVQ

Parental  EVQGKKVARVANPRLDTFSREIFRNEKLKKVVRLARVRDHYIFSVESTGVLPPDVLVSEAIKVLMGKCRR
          E..GKKVARVANPRLDTFS.EIFRNEK.KKVV.LA.VRDH.IFSVESTGVLP.DVLVSEAIKVLMGKCRR
Retrocopy EDPGKKVARVANPRLDTFSGEIFRNEKPKKVV*LAWVRDHDIFSVESTGVLPQDVLVSEAIKVLMGKCRR

Parental  FLDELDAVQMD
          FLDELDAVQMD
Retrocopy FLDELDAVQMD

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_739 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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006601	1 retrocopy	retro_chof_615,
Tarsius syrichta	ENSTSYG00000011921	1 retrocopy	retro_tsyr_739 ,