RetrogeneDB ID: retro_tbel_716

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_283:190158..191013(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000012042
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PRMT2
• Ensembl ID: ENSTBEG00000008289
• Aliases: None
• Description: protein arginine methyltransferase 2 [Source:HGNC Symbol;Acc:5186]

Sequence

>retro_tbel_716
ACTGGAATCCTCAGCCTCTTCTGTGCTCATTACGAGCAGCCTAAAGCGGTGTATGCGGTGGAGGCCAGTGAGATGGCGCA
GCACACGGGGCAGCTGGTCCTGCAGAAGGGCTTTGCTGACACCGTTACCGTGTTTCAGCAGAAGGTGGAAGAGGTGGTAC
TGCCTGAGAAGGTCGATGTGCTGGTGTCCAAGTGGATGGGGACCTGTCTCCTGTTTGAGTTCATGATCAAGTCTACCCTG
TATGCACGGGGTGCCTGGCTGAAGGAGGGTGGGTCATCTGGCCTACCACGGCCACCTTGCACCTTGTGCCCTGTAATGCC
AACGAGGACTACCACAGCAAGGTGCTCTTCTGGGACAACGCATATGACTTCAACCTCAGCGCTCTGAGATCTGGCAATTA
AGGAGCTATTTTTCAAAGCCTAAGTGTAACTGCATATTGAAACCAGAAGACTGTCTCTCTGAACTATGCACAGTATCACA
GCTGGAGATGAGGACTGGGCAAATCTCTGATCTTGAGACCATGCGAGGTGACCTGTGCTTCGACATCCGGAAGGCGGGCA
CCTTGCACGGCTTCACTGCCTGGTTCAGTGTGCACTTCCAGAGCCTGGAGGATGGGCAGCCACCACAGGTGCTCAGCACT
GGCCCCTTCCACCCAACCGCCCACTGGAAGCAGGCGTTCATGATGGATGAGCCAGTCCCTGGCCCCCCCAGGAGATGTAG
TCAGTGGGCTCCGTTGTGTTGCAAAGAAACCCAGTATGGAGAAGGCACATGGCAGTTTCCCTAAGCTGGGCCGTCACTTC
CAGAGAAGACCCCTCATCTCAGAGAGCTAGAGAAAAAGTCTTTCCCATTTGGAGG

Alignment

ORF - retro_tbel_716 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.52 %
• Parental protein coverage: 68.1 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  TGIISLFCAHYAQPKAVYAVEASEMAQHTGQLVLQNGFADTITVFQQKVEEVVLPEKVDVLVSEWMGTCL
          TGI.SLFCAHY.QPKAVYAVEASEMAQHTGQLVLQ.GFADT.TVFQQKVEEVVLPEKVDVLVS.WMGTCL
Retrocopy TGILSLFCAHYEQPKAVYAVEASEMAQHTGQLVLQKGFADTVTVFQQKVEEVVLPEKVDVLVSKWMGTCL

Parental  LFEFMIESILYARDAWLKEDG-VIWPTTAALHLVPCNADKDYHSKVLFWDNAYEFNLSALKS-LAIKEFF
          LFEFMI.S.LYAR.AWLKE.G.VIWPTTA.LHLVPCNA..DYHSKVLFWDNAY.FNLSAL.S.......F
Retrocopy LFEFMIKSTLYARGAWLKEGG<VIWPTTATLHLVPCNANEDYHSKVLFWDNAYDFNLSALRS<WQLRSYF

Parental  SKPKYNHILKPEDCLSEPCTILQLDMRTVQISDLETMRGDLCFDIRKAGTLHGFTAWFSVHFQSLEDGQP
          SKPK.N.ILKPEDCLSE.CT..QL.MRT.QISDLETMRGDLCFDIRKAGTLHGFTAWFSVHFQSLEDGQP
Retrocopy SKPKCNCILKPEDCLSELCTVSQLEMRTGQISDLETMRGDLCFDIRKAGTLHGFTAWFSVHFQSLEDGQP

Parental  PQVLSTGPFHPTTHWKQTLFMMDDPVP-VHTGDVVT-GSVVLQRNPVWRRHMSVSLSWAVTSREDPSSQR
          PQVLSTGPFHPT.HWKQ..FMMD.PVP....GDVV..GSVVLQRNPVWRRHM.VSLSWAVTSREDPSSQR
Retrocopy PQVLSTGPFHPTAHWKQA-FMMDEPVP>APPGDVVS>GSVVLQRNPVWRRHMAVSLSWAVTSREDPSSQR

Parental  VGEKVFPIWR
          ..EKVFPIWR
Retrocopy AREKVFPIWR

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_716 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_716 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000007631	1 retrocopy	retro_mluc_796,
Tupaia belangeri	ENSTBEG00000000940	1 retrocopy	retro_tbel_750,
Tupaia belangeri	ENSTBEG00000008289	1 retrocopy	retro_tbel_716 ,