RetrogeneDB ID: retro_tbel_2409

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_110198:77861..78426(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBXO45
• Ensembl ID: ENSTBEG00000011780
• Aliases: None
• Description: F-box protein 45 [Source:HGNC Symbol;Acc:29148]

Sequence

>retro_tbel_2409
CTGTCTGAGCTGTGGTGCTGCGCCCTGGTGTTCAAGCACTGGTACTACTGCCTGCATGACAATGAGAATGGCGAGGTGTG
GTGGAGCCTGTGTGCCCTGCAGCCTGGGAGAAGAGGCTTTGCACACGGACATCCTCTGCAACCTGCCCAGCTACAAGGTC
AAGGGACGAGCTTTCCAACAGGCCTTCAGCACTGATGACTGCTCCAGGAATGTCTACATTAAGAAGAATGGCTTTACTTT
ACATCAAAACCCTATTGCTCAGAGCACTGATGGTGTAAGGACCAAGATTGGTTTCAGTGAGGGTTGCCACGCCTGGGAAG
TATGCGGGGAGGGCCCTTTGGGCACTGTGGCAGTGATAGGAATTGCCACAAAACGGGCCCCCATGCAGTGCCAAGGTTAT
GTGGCATTGCTGGGCAGTGATGACCAGAGCTGGGGCTGGAATCTGGTGAACAATAATCTGCTACATAATGGAGAAGTCAA
TGGCAATTTTTCACAGTGCAACAATGCACCAAAATATCAGATAGGTGAAAGAATTGGAGTCATCTTGTACATGGAGGATA
AGACT

Alignment

ORF - retro_tbel_2409 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.95 %
• Parental protein coverage: 80.26 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LSELWCCALVFKHWYYCLHDNENGEVWWSLCAR-SLGEEALHTDILCNLPSYKVKVRAFQHAFSTNDCSR
          LSELWCCALVFKHWYYCLHDNENGEVWWSLCA..SLGEEALHTDILCNLPSYKVK.RAFQ.AFST.DCSR
Retrocopy LSELWCCALVFKHWYYCLHDNENGEVWWSLCAL>SLGEEALHTDILCNLPSYKVKGRAFQQAFSTDDCSR

Parental  NVYIKEDCFTLHRNPIAQSTDGARTKIGFSEGRHAWEVWWEG-LGTVAVIGIATKRAPMQCQGYVALLGS
          NVYIK...FTLH.NPIAQSTDG.RTKIGFSEG.HAWEV..EG.LGTVAVIGIATKRAPMQCQGYVALLGS
Retrocopy NVYIKKNGFTLHQNPIAQSTDGVRTKIGFSEGCHAWEVCGEGPLGTVAVIGIATKRAPMQCQGYVALLGS

Parental  DDQSWGWNLVDNNLLHNGEVNGSFPQCNNAPKYQIGERIRVILDMEDKT
          DDQSWGWNLV.NNLLHNGEVNG.F.QCNNAPKYQIGERI.VIL.MEDKT
Retrocopy DDQSWGWNLVNNNLLHNGEVNGNFSQCNNAPKYQIGERIGVILYMEDKT

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_2409 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2409 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000011780	2 retrocopies	retro_tbel_2409 , retro_tbel_3675,