RetrogeneDB ID: retro_tbel_2974

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_125655:140480..141232(+)
• 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_2974
GCTCATGCACAGTTAGTTCGAGAAGTGGATGTGCAGAAGGTGTCTGCTTTTGAGACTCCATATGTAGATGCAATAAAGAG
TTTATGAAATGATCCTGGAATCCAGGAGTGCTTCAATAGACAAGGAGAGTATCAGTTACCTGACTCTACCAAATACTACC
TTAATGACTTGGACCCCATAGCTGACCCCGCATACCTGCCTACCCAACAAGATGTGCTTAGAGTTCGAGTCCCCACAGGG
ATCATCGATACCCACTTTCACTTACAAAGTGTCATTTTCAGAATGGTCAGTGTAGGAGGTCAAAGGTCAGAGAGAACAAA
ATGGATACACTGCTTTGAAAATGTCACCTCTATCATGGTTCTAGTCGTGCTTAGTGAATATGACCAAGTTCTTGTGGAAT
CAGACATTGAGAATCGAATGGAGGAAAGCAAAAGCACTCTTTAGAACAATGATCACATATCCCTGGTTCCAGAACTCCTG
TTATTCTGTTCTTAAATAAGAAAGATCTTCTAGAGGAGAAAATCATGTATTACCATCTAGTTGACTACTTCCCAGAATAT
GCCGGACAGGAGAAAGATGCCCAGGCAGCTCAAGAATTCACCGTGAAGATGTTCGTGGACCTGAACCCAGACAGTGACAA
AATTATCTACTTCCACTTCACACTCGCCACAGACATGGCGAGCATCCACTATGTCTTCACTGCAGTCAAGGACACGGTCC
TCCAGTTGAATCTGAAGGAGTACAATCTAGTC

Alignment

ORF - retro_tbel_2974 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.53 %
• Parental protein coverage: 70.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AHAQLVREVDVEKVSAFENPYVDAIKSLWNDPGIQECYDRRREYQLSDSTKYYLNDLDRVADPAYLPTQQ
          AHAQLVREVDV.KVSAFE.PYVDAIKSL.NDPGIQEC..R..EYQL.DSTKYYLNDLD..ADPAYLPTQQ
Retrocopy AHAQLVREVDVQKVSAFETPYVDAIKSL*NDPGIQECFNRQGEYQLPDSTKYYLNDLDPIADPAYLPTQQ

Parental  DVLRVRVPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENR
          DVLRVRVPT.GII...F.LQSVIFRMV.VGGQRSER.KWIHCFENVTSIM.LV.LSEYDQVLVESD.ENR
Retrocopy DVLRVRVPT-GIIDTHFHLQSVIFRMVSVGGQRSERTKWIHCFENVTSIMVLVVLSEYDQVLVESDIENR

Parental  MEES-KALFRTIITYPWFQNSS-VILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVD
          MEES.KALFRT.ITYPWFQNS........K..L.E..IMY.HLVDYFPEY.G...DAQAA.EF..KMFVD
Retrocopy MEES>KALFRTMITYPWFQNSC>ILFLNKKDLLEEK-IMYYHLVDYFPEYAGQEKDAQAAQEFTVKMFVD

Parental  LNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLNLKEYNLV
          LNPDSDKIIY.HFT.ATD...I..VF.AVKDT.LQLNLKEYNLV
Retrocopy LNPDSDKIIYFHFTLATDMASIHYVFTAVKDTVLQLNLKEYNLV

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_2974 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2974 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 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,