RetrogeneDB ID: retro_tbel_4057

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_61029:111..1008(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBXW2
• Ensembl ID: ENSTBEG00000015141
• Aliases: None
• Description: F-box and WD repeat domain containing 2 [Source:HGNC Symbol;Acc:13608]

Sequence

>retro_tbel_4057
CTTTACTACAAAGATGGACTTCTCTGTACAGGGTCAGATGACTTGTCTGCAAAGCTGTGGGATGTGAGCACAGGGCAGTG
CGTTTATGGCATCCAGACCCACACTTGTGCAGCGGTGAAGTTTGATGAGCAGAAGCTTGTGACAGGCTCCTTTGACAACA
CTGTGGCCTGCTGGGAATGGAGTTCTGGAGCCAGGACTCAGCACTTCTGGGGGCACACAGGGGCGGTGTTTAGCGTGGAC
TACAATGATGAACTGGATATCTTGGTGAGTGGCTCTGCAGACTTCACTGTGAAAGTATGGGCTTTATCTGCCGGGACATG
CCTGAACACACTCACTGGGCACACGGAATGGGTCACCAAGGTGGTTTTGCAGAAATGCAAAGTCAAGTCTCTCTTACACA
GCCCTGGAGACTACATCCTTTTAAGTGCAGACAAATATGAGATCAAGATTTGGCCAATTGGGAGAGAAATCAACTGCAAG
TGCTTAAAGACATTGTCTGTCTCTGAGGATAGAAGTATCTGTCTGCAGCTAAGACTTCATTTTGATGGCAAATACATTGT
CTGTAGTTCAGTACTAGGTCTCTACCAGTGGGACTTTGCCAGTTACGATATTCTCAGGGTCATCAAGACTCCTGAGATAG
CAAACTTGGCTTTGCTTGGCTTTGGAGATGTCTTTGACCTGCTGTTTGACAACCACTACCTGTACATCATGGACTTGAGG
ACAGAGAGCCTGATTAGTCGCTGGCCTCTGCCGGAGTACAGGAAATCAAAGAGAGGCTCAAGCTTCTAAGCAGGCGAAGT
ATACTGCATGAACGGACTGGATGGGCACAATGACGCGTGCTTATTAAAACCCACCAGCATGGCTCATCACAGTATTCCCC
TGGTGTTGTGGAAGGAA

Alignment

ORF - retro_tbel_4057 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.31 %
• Parental protein coverage: 65.86 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LYYKDGLLCTGSDDLSAKLWDVSTGQCVYGIQTHTCAAVKFDEQKLVTGSFDNTVACWEWSSGARTQHFR
          LYYKDGLLCTGSDDLSAKLWDVSTGQCVYGIQTHTCAAVKFDEQKLVTGSFDNTVACWEWSSGARTQHF.
Retrocopy LYYKDGLLCTGSDDLSAKLWDVSTGQCVYGIQTHTCAAVKFDEQKLVTGSFDNTVACWEWSSGARTQHFW

Parental  GHTGAVFSVDYNDELDILVSGSADFTVKVWALSAGTRVNTLTGHTEWVTKVVLQKCKVKSLLHSPGDYIL
          GHTGAVFSVDYNDELDILVSGSADFTVKVWALSAGT..NTLTGHTEWVTKVVLQKCKVKSLLHSPGDYIL
Retrocopy GHTGAVFSVDYNDELDILVSGSADFTVKVWALSAGTCLNTLTGHTEWVTKVVLQKCKVKSLLHSPGDYIL

Parental  LSADKYEIKIWPIGREINCKCLKTLSVSEDRSICLQPRLHFDGKYIVCSSALGLYQWDFASYDILRVIKT
          LSADKYEIKIWPIGREINCKCLKTLSVSEDRSICLQ.RLHFDGKYIVCSS.LGLYQWDFASYDILRVIKT
Retrocopy LSADKYEIKIWPIGREINCKCLKTLSVSEDRSICLQLRLHFDGKYIVCSSVLGLYQWDFASYDILRVIKT

Parental  PEIANLALLGFGDVFDLLFDNRYLYIMDLRTESLISRWPLPEYRKSKRDSSFLAGEASWLNGLDGHNDTG
          PEIANLALLGFGDVFDLLFDN.YLYIMDLRTESLISRWPLPEYRKSKR.SSF.AGE....NGLDGHND..
Retrocopy PEIANLALLGFGDVFDLLFDNHYLYIMDLRTESLISRWPLPEYRKSKRGSSF*AGEVYCMNGLDGHNDAC

Parental  LVFATSMPDHSIHLVLWKE
          L...TSM..HSI.LVLWKE
Retrocopy LLKPTSMAHHSIPLVLWKE

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_4057 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4057 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000017023	1 retrocopy	retro_nleu_2886,
Tupaia belangeri	ENSTBEG00000015141	1 retrocopy	retro_tbel_4057 ,