RetrogeneDB ID: retro_tbel_3381

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_138986:10391..10862(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COMMD10
• Ensembl ID: ENSTBEG00000004061
• Aliases: None
• Description: COMM domain containing 10 [Source:HGNC Symbol;Acc:30201]

Sequence

>retro_tbel_3381
CAGAGCAGCTTCAGTGAAGAAGAGGAAGAAAAACTTCAAGCTGCGTTTTCTCTAGAGAAACAAGAGCTTCACCTAGTTCT
TGAAACAATATCGTTTATTTTAGAACAGGCAGTCTATCACAATGTGAAGCCAGCAGCTTTGCAGCAGCAGTTAGAGAACA
TTCATCTTGGCCAAGACAAAGCAGAAGCATTTGTCAGTGTTTGGTCTTCTGTGGGTCAAGAGACGGTTGAAAAGGTCAGG
CAGAGGATTTTGGCTCCCCAGAAGCTTGAGACAGTTGGATGGCAGCTTAATCTTCAAATGGCTCACTCAGCTCAAGCAAA
ACTCAAATCTCCTCAAGCTGTGTTACAACTAGGAGTGAGCAATGAAGATTCAAAGAGCCTGGAGAAGGTTCTTGTGGAAT
TTAGTCACAAGGAGTTGTTTGATTTCTATAACAAGCTAGAGACCATACAAGCACAGCTGGATTCCCTTACA

Alignment

ORF - retro_tbel_3381 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.45 %
• Parental protein coverage: 99.37 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ESSFSEEEEEKLQAAFSLEKQELHLVLETISFILEQAVYHNVKPAALQQQLENIHLGQDKAEAFVSAWSS
          .SSFSEEEEEKLQAAFSLEKQELHLVLETISFILEQAVYHNVKPAALQQQLENIHLGQDKAEAFVS.WSS
Retrocopy QSSFSEEEEEKLQAAFSLEKQELHLVLETISFILEQAVYHNVKPAALQQQLENIHLGQDKAEAFVSVWSS

Parental  MGQETVEKFRQRILAPQKLETVGWQLNLQMAHSAQAKLKSPQAVLQLGVSNEDSKSLEKVLVEFSHKELF
          .GQETVEK.RQRILAPQKLETVGWQLNLQMAHSAQAKLKSPQAVLQLGVSNEDSKSLEKVLVEFSHKELF
Retrocopy VGQETVEKVRQRILAPQKLETVGWQLNLQMAHSAQAKLKSPQAVLQLGVSNEDSKSLEKVLVEFSHKELF

Parental  DFYNKLETIQAQLDSLT
          DFYNKLETIQAQLDSLT
Retrocopy DFYNKLETIQAQLDSLT

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_3381 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3381 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.

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008311	2 retrocopies	retro_chof_1462, retro_chof_1585,
Cavia porcellus	ENSCPOG00000020474	1 retrocopy	retro_cpor_337,
Loxodonta africana	ENSLAFG00000011885	1 retrocopy	retro_lafr_142,
Microcebus murinus	ENSMICG00000006173	2 retrocopies	retro_mmur_1132, retro_mmur_607,
Myotis lucifugus	ENSMLUG00000010780	1 retrocopy	retro_mluc_2087,
Sarcophilus harrisii	ENSSHAG00000001698	1 retrocopy	retro_shar_261,
Tupaia belangeri	ENSTBEG00000004061	1 retrocopy	retro_tbel_3381 ,