RetrogeneDB ID: retro_tbel_689

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_2751:327892..329089(-)
• Located in intron of: ENSTBEG00000010434

Retrocopy information

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

Parental gene information

• Parental gene symbol: POLR3C
• Ensembl ID: ENSTBEG00000015610
• Aliases: None
• Description: polymerase (RNA) III (DNA directed) polypeptide C (62kD) [Source:HGNC Symbol;Acc:30076]

Sequence

>retro_tbel_689
AGCAAGACCATGGACTATGCTGAGGTATCAAACACATTTGTGCGACTGGCAGACACGCACTTTGTACAGCGCTGCCCCTT
GGTGCCTGCCACTGAGAAGTCAGAGTCTGGGCCACCGCCGCCTGCCCCCACTCTCGTCATTACTGAGAAGGACATGTACC
TGGTTCCTAAGCTGAGCTTGATAGGGAAAGGTAAAAGGAGGAGATCATCTGAAGAAGATGCTGCTGGAGAACCCAAGGCC
AAGAGACCAAAGCATAGCACAGATAACAAGGAGCCCACTCCAGATGACGGGATTTATTGGCAGGCCAACCTTGACAGATT
CCACCAACACTTCCGTGACCAGGCCATCGTGAGTGCAGTAGCCAACAGAATGGACCAGACAAGCAGTGAGATTGTGCGGA
CCATGCTCCGGATGAGTGAGATTACCACTCCCTCTAGTGCTCCCTTTACCCTGCCCTTGTCTTCCAATGAGATCTTTAGA
TCCCTACCCGTCGGCTATAACATCTCGAAGCAAGTTCTTGATCAGTATCTTACTCTTCTGGCAGATGATCCACTAGAGTT
TGTTGGAAAGTCTGGCGACAGTGGTGGAGGAATGTATGTCATCAATCTCCATAAGGCATTAGCATCCCTAGCCACAGCCA
CGCTGGAGTCTGTCATACAGGAGAGATTTGGGTCTCGCTGTGCCAGAATATTCTGCCTAGTTTTGCAAAAGAAACACCTG
GAGCAAAAGCAGGTGGAAGACTTTGCCATGATTCCTGCAAAGGAAGCAAAGGATATGCTGTATAAGATGCTTTCAGAAAA
TTTCATGTCACTTCAGGAAATTCCCAAAACACCAGACCATGCCCCATCCAGGACCTTCTACTTATACATCGTGAATGTTC
TGTCAGTTGCCCGAATGTTATTGCACAGGTGCTATAAGAGCATAGCCAACTTGATAGAAAGGAGGCAGTTTGAAACCAGA
GAGAACAAGCGTCTACTAGAAAAGTCTCAGAGGGTAGAAGCAATCATCGCATCTATGCAGGCTATGGGTGCAGAGGAGGC
CCAACTACAGGAAATAGAGGAGATGATCACAGCCCCTGAACGTCAGCAGCTAGAGACCCTGAAACGTAACGTCAACAAGT
TGGATGCCAGTGAGCTCCAGGTGGATGAAACTATCTTCCTGTTGGAGTCATACATCGAGAGCACCATGAAGAGACAA

Alignment

ORF - retro_tbel_689 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.5 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SKTMDYAEVSNTFVRLADTHFVQRCPLVPATEKSEPGPPPPAPTLVINEKDMYLVPKLSLIGKGKRRRSS
          SKTMDYAEVSNTFVRLADTHFVQRCPLVPATEKSE.GPPPPAPTLVI.EKDMYLVPKLSLIGKGKRRRSS
Retrocopy SKTMDYAEVSNTFVRLADTHFVQRCPLVPATEKSESGPPPPAPTLVITEKDMYLVPKLSLIGKGKRRRSS

Parental  EEDAAGEPKAKRPKHSTDNKEPTPDDGIYWQANLDRFHQHFRDQAIVSAVANRMDQTSSEIVRTMLRMSE
          EEDAAGEPKAKRPKHSTDNKEPTPDDGIYWQANLDRFHQHFRDQAIVSAVANRMDQTSSEIVRTMLRMSE
Retrocopy EEDAAGEPKAKRPKHSTDNKEPTPDDGIYWQANLDRFHQHFRDQAIVSAVANRMDQTSSEIVRTMLRMSE

Parental  ITTPSSAPFTLPLSSNEIFRSLPVGYNISKQVLDQYLTLLADDPLEFVGKSGDSGGGMYVINLHKALASL
          ITTPSSAPFTLPLSSNEIFRSLPVGYNISKQVLDQYLTLLADDPLEFVGKSGDSGGGMYVINLHKALASL
Retrocopy ITTPSSAPFTLPLSSNEIFRSLPVGYNISKQVLDQYLTLLADDPLEFVGKSGDSGGGMYVINLHKALASL

Parental  ATATLESVVQERFGSRCARIFRLVLQKKHLEQKQVEDFAMIPAKEAKDMLYKMLSENFMSLQEIPKTPDH
          ATATLESV.QERFGSRCARIF.LVLQKKHLEQKQVEDFAMIPAKEAKDMLYKMLSENFMSLQEIPKTPDH
Retrocopy ATATLESVIQERFGSRCARIFCLVLQKKHLEQKQVEDFAMIPAKEAKDMLYKMLSENFMSLQEIPKTPDH

Parental  APSRTFYLYTVNVLSVARMLLHRCYKSIANLIERRQFETRENKRLLEKSQRVEAIIASMQATGAEEAQLQ
          APSRTFYLY.VNVLSVARMLLHRCYKSIANLIERRQFETRENKRLLEKSQRVEAIIASMQA.GAEEAQLQ
Retrocopy APSRTFYLYIVNVLSVARMLLHRCYKSIANLIERRQFETRENKRLLEKSQRVEAIIASMQAMGAEEAQLQ

Parental  EIEEMITAPERQQLETLKRNVNKLDASELQVDETIFLLESYIESTMKRQ
          EIEEMITAPERQQLETLKRNVNKLDASELQVDETIFLLESYIESTMKRQ
Retrocopy EIEEMITAPERQQLETLKRNVNKLDASELQVDETIFLLESYIESTMKRQ

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_689 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_689 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000015610	1 retrocopy	retro_tbel_689 ,