RetrogeneDB ID: retro_tbel_2487

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_111800:44404..45159(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GNAQ
• Ensembl ID: ENSTBEG00000009447
• Aliases: None
• Description: guanine nucleotide binding protein (G protein), q polypeptide [Source:HGNC Symbol;Acc:4390]

Sequence

>retro_tbel_2487
GCTCCTGCACAGTTAGTTGGAGAAGTGGATGTGCAGAAGGTGTCTGTTTTTGAGAATCCATATGTAGATGCAATAAAGAG
TTTATGGAATGATCCTGGAATCCAGGAGTGCTTCAATAGAAAACGAGAGTATCAGTTATCTGACTCTACCAAATACTATC
TTAATGACTCAGACCCCATAGCTGATCCTGCATACCTGCCTATGCAAGAAGATGTGCTTAGAGTTCGAGTCCCCACCACA
GGAATCATGGAATACCCCCTTCGACTTACAAAGTGTCATTTTCAGAATGGTCCATGTAGGGGGCCAAAGGTCAGAGAGAA
GAAAATGGATGCACTGCTTTGAAAATGTCACCTCTACCATGTTTCCAGTCGCTTAGTGAATATGATCAAGTTCTTGTGGA
CTCAGACAATGAGAATCGAAAGGAGGAAAGCAAAGCACTCTTTAGAACAATTATCACATATCCCTGGTTCCAGAACTCCT
CTGTTATTCTGTTCTTAAATACGAAGAATCTTCTAGAGGAGAAAATCATGTATTCCCATCTAGTTGACTACTTCTCAGAA
TACGACCCACCACAGAGAGATGCCTAGGCAGCTTGAGAATTCATCCTGAAGATGTTCGTGGACCTGAACCCAGACAGTGA
CAAAATTACCTACTCCCACTTCACATGCGCCACAGACACGGAGAACATCCGCTATGTCTTCACTGCGGTCAAGGACACCG
TCCTCCAGTTGAATCTGAAGGAGTACAATCTAGTC

Alignment

ORF - retro_tbel_2487 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.28 %
• Parental protein coverage: 70.19 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AHAQLVREVDVEKVSAFENPYVDAIKSLWNDPGIQECYDRRREYQLSDSTKYYLNDLDRVADPAYLPTQQ
          A.AQLV.EVDV.KVS.FENPYVDAIKSLWNDPGIQEC..R.REYQLSDSTKYYLND.D..ADPAYLP.Q.
Retrocopy APAQLVGEVDVQKVSVFENPYVDAIKSLWNDPGIQECFNRKREYQLSDSTKYYLNDSDPIADPAYLPMQE

Parental  DVLRVRVPTTGIIEY-PFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNEN
          DVLRVRVPTTGI.EY.P.....V.F......G....R..................LSEYDQVLV.SDNEN
Retrocopy DVLRVRVPTTGIMEY<PPSTYKVSFSEWSM*GAKGQREENGCTALKMSPLPCFQSLSEYDQVLVDSDNEN

Parental  RMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDL
          R.EESKALFRTIITYPWFQNSSVILFLN.K.LLEEKIMYSHLVDYF.EYD.PQRDA.AA.EFILKMFVDL
Retrocopy RKEESKALFRTIITYPWFQNSSVILFLNTKNLLEEKIMYSHLVDYFSEYDPPQRDA*AA*EFILKMFVDL

Parental  NPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLNLKEYNLV
          NPDSDKI.YSHFTCATDTENIR.VF.AVKDT.LQLNLKEYNLV
Retrocopy NPDSDKITYSHFTCATDTENIRYVFTAVKDTVLQLNLKEYNLV

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_2487 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2487 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000002860	2 retrocopies	retro_nleu_2644, retro_nleu_2781,
Pongo abelii	ENSPPYG00000019311	1 retrocopy	retro_pabe_3536,
Tupaia belangeri	ENSTBEG00000009447	2 retrocopies	retro_tbel_2487 , retro_tbel_2974,
Tupaia belangeri	ENSTBEG00000015771	1 retrocopy	retro_tbel_2449,