RetrogeneDB ID: retro_tbel_3732

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_149933:588..984(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FGFR1OP2
• Ensembl ID: ENSTBEG00000011581
• Aliases: None
• Description: FGFR1 oncogene partner 2 [Source:HGNC Symbol;Acc:23098]

Sequence

>retro_tbel_3732
ATGAGTTGCACAATAGAGAAGGCACTTGCTGATGCCAAAGCTCTTGTTGAAAGGTTGAGAGATCACGATGATGCAGCAGA
ATCTCTGGTAGAGCAAACCACGGCTCTCAACAAGCAAGTGGAAGCAATGAAGCAGTATCAGGAAGAAATTCAAGAACTTA
ATGAGGTTGCAAGACATCGGCCATGGTCCACATTAGCTATGGGAATTCAGCAAGAAAACAGATAAATAAGAGAACTGCAA
CAAGAAAACAAAGAATTACGAACAACACTGGAAGAACATCAGTCTGCCTTGGAACTTACAAGGAGCAAGTATCGAGAACA
AATGTTTAGATTGCTAATGGCTAGCAAAAAAGATGACCCTGGTATAATAATGAAGTTAAAAGAGTAGCACTCCAAG

Alignment

ORF - retro_tbel_3732 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.3 %
• Parental protein coverage: 63.29 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSCTIEKALADAKALVERLRDHDDAAESLIEQTTALNKRVEAMKQYQEE-SELNEVARHRPRSTLVMGIX
          MSCTIEKALADAKALVERLRDHDDAAESL.EQTTALNK.VEAMKQYQEE..ELNEVARHRP.STL.MGI.
Retrocopy MSCTIEKALADAKALVERLRDHDDAAESLVEQTTALNKQVEAMKQYQEEIQELNEVARHRPWSTLAMGIQ

Parental  XXXXXXXXXXXXXXXLRTSLEEHQSALELIMSKYREQMFRLLMASKKDDPGIIMKLKEQHSK
          ...............LRT.LEEHQSALEL..SKYREQMFRLLMASKKDDPGIIMKLKE.HSK
Retrocopy QENR*IRELQQENKELRTTLEEHQSALELTRSKYREQMFRLLMASKKDDPGIIMKLKE*HSK

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_3732 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3732 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 10 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006966	2 retrocopies	retro_dnov_2342, retro_dnov_2594,
Equus caballus	ENSECAG00000016890	1 retrocopy	retro_ecab_988,
Homo sapiens	ENSG00000111790	1 retrocopy	retro_hsap_994,
Loxodonta africana	ENSLAFG00000012476	1 retrocopy	retro_lafr_486,
Monodelphis domestica	ENSMODG00000016618	2 retrocopies	retro_mdom_1788, retro_mdom_244,
Mus musculus	ENSMUSG00000040242	2 retrocopies	retro_mmus_3669, retro_mmus_720,
Pongo abelii	ENSPPYG00000004375	1 retrocopy	retro_pabe_839,
Pan troglodytes	ENSPTRG00000004783	1 retrocopy	retro_ptro_756,
Tupaia belangeri	ENSTBEG00000007772	1 retrocopy	retro_tbel_2455,
Tupaia belangeri	ENSTBEG00000011581	2 retrocopies	retro_tbel_3732 , retro_tbel_4608,