RetrogeneDB ID: retro_tbel_3487

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_142394:66525..67158(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM237
• Ensembl ID: ENSTBEG00000009845
• Aliases: None
• Description: transmembrane protein 237 [Source:HGNC Symbol;Acc:14432]

Sequence

>retro_tbel_3487
CGTGCCCTTCCACCTGTGCCAAGTGACATTCAAGATGATATTCCACTTAGTAGTCCTAAGAAAAAGAAACTCAAAGGAAA
AAACACACTAGCTAGTCCTTTAGAAGACCTTGCATTGCCTGCTGTTGATAGGCCACCTGAGGGCAGTGAGCCACCCACTG
AGGAACTTAGAGAGGCTCCTGTTCAAAGGAGACAGAAGAAGAAGAGGCCATCTCTTGAATTGGAGACTTCTTTCACCCAA
AAGAAGACGTCTAGCTCTTCCATATTACGAAGTGAAAACGGTATTGATGGGGGACCAACTGAGGAGGCAGTTGTTCTAAA
ACCTCGAAGGAAGAAAAAGAAAACCCAGCCAACAGAGTTATAGTATGCCAACGAACTAGGCGTGGAAGATGAAGACATAC
TCGCTGATGAGCAAGGTAGCCCAGAACAGCAGTCTGTGTTCACGACACCCACTGGCATCAGCCAGCATGTGGGGAAAGTA
TTTGTGGAAAAAAAACGGTGATTCCAGGCCACGGATTGTGCAGAGTTAATAAAGACCACAGAGAACATTGATGTGTCAGT
GTACATAAAGCCTTTCTGGACTACCAGAGATGTGGCACTTTCAATGCACCGGGCTTTCAGGATGATTGGTCTG

Alignment

ORF - retro_tbel_3487 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.63 %
• Parental protein coverage: 57.1 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RALPPLCSD--HDIPLSRPKKKKLKGKNTLASPSEDLAEPAVDRPSEGSEPLTEELKEAPVQRRQKKKRP
          RALPP..SD...DIPLS.PKKKKLKGKNTLASP.EDLA.PAVDRP.EGSEP.TEEL.EAPVQRRQKKKRP
Retrocopy RALPPVPSDIQDDIPLSSPKKKKLKGKNTLASPLEDLALPAVDRPPEGSEPPTEELREAPVQRRQKKKRP

Parental  SLELETSFTQKKTSSSSILRNENGIDGGPTEEAVVLKPRRKKKKTQPTELQYANELGVEDEDILTDEQGS
          SLELETSFTQKKTSSSSILR.ENGIDGGPTEEAVVLKPRRKKKKTQPTEL.YANELGVEDEDIL.DEQGS
Retrocopy SLELETSFTQKKTSSSSILRSENGIDGGPTEEAVVLKPRRKKKKTQPTEL*YANELGVEDEDILADEQGS

Parental  PEQQSVFTAPTGVSQPVGKVFVEKNRRFQATDRAELIKTTENIDVSVDIKPFWTTRDVALSVHRAFRMIG
          PEQQSVFT.PTG.SQ.VGKVFV...R.FQATD.AELIKTTENIDVSV.IKPFWTTRDVALS.HRAFRMIG
Retrocopy PEQQSVFTTPTGISQHVGKVFVXXXR*FQATDCAELIKTTENIDVSVYIKPFWTTRDVALSMHRAFRMIG

Parental  L
          L
Retrocopy L

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_3487 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3487 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
Dasypus novemcinctus	ENSDNOG00000002126	1 retrocopy	retro_dnov_440,
Echinops telfairi	ENSETEG00000003826	1 retrocopy	retro_etel_17,
Tupaia belangeri	ENSTBEG00000009845	1 retrocopy	retro_tbel_3487 ,