RetrogeneDB ID: retro_tbel_2795

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_119387:93135..93888(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000006275
• Aliases: None
• Description: None

Sequence

>retro_tbel_2795
GAGATCCGCGAGCTGCGGTCCCAGATCTCTGACACGTCGGTGGTCCTGCCCATGGACAACAGCCCATCCCTGGACGTGGA
TGGCATCATTGCCGAGGTCCGCACCCACTATGAGGAAATTGCCAACCACAGCTGGGCTGAGGCTGAGAACATGTGCCAAA
TCAAGTATGAGGAGCTGCAGTTGCAGGCCGGGAAGCACTGGGATGACCTGTGGCGCACGAAGACCGAGATCTCTGAAATG
AACCAGAACATCAGCCGGCTCCAGGCTGAGACTGAGGGCCTTGAGGGCCAGAGAGCTTCCCTGGAGCCCGCCATTGCTGA
TGCTGAGCAGTGCGGAGAGCTGGCCGATAACGATGCCAACGCCAAGCTGGCCCAGCTGGAGGCGCCCTGCAGGAGGCCCA
GTAGGACATGGTGCGGCTGCTGCCCGAGTACCAGGAGCTGAAGAACGTCAAGCTGGGCCTGGACATAAAGATCACCACCT
ACTGCAAGGTGCTGGGAGGGCGAGGAGAGCTGGCTGGAGTCTAGGATGCAGAACATGAGTATCCATAGAAAAGACCACCC
AATGGCTACTCAGGTGGGCTGACCTACTGAGGCCTCACAAGTCCCCAGCCTCAATTATGGGCTGAGCGCTTTCCCAGTCC
AACTTCAAACTCTGGTGGAGGGCTCCAAGCCCCTTAAGCCGCACCAGCTCCACCAAGGTCCATGGTCGTGCAGAAGAATT
GAGACACGTGAGGAGGACCTGGTGTCTCATTCC

Alignment

ORF - retro_tbel_2795 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.2 %
• Parental protein coverage: 97.61 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  EIRELQSQISDTSVVLSMDNSRSLDMDGIIAEVRAQYEEIANRSRAEAENMYQIKYEELQTLAGKHGDDL
          EIREL.SQISDTSVVL.MDNS.SLD.DGIIAEVR..YEEIAN.S.AEAENM.QIKYEELQ..AGKH.DDL
Retrocopy EIRELRSQISDTSVVLPMDNSPSLDVDGIIAEVRTHYEEIANHSWAEAENMCQIKYEELQLQAGKHWDDL

Parental  RRTKTEISEMNRNISRIQAEIEGLKGQRASLEAAIADAEQRGELAIKDANAKLAQLEA-ALQQAKQDMAR
          .RTKTEISEMN.NISR.QAE.EGL.GQRASLE.AIADAEQ.GELA..DANAKLAQLEA.ALQ.A..DM.R
Retrocopy WRTKTEISEMNQNISRLQAETEGLEGQRASLEPAIADAEQCGELADNDANAKLAQLEA<ALQEAQ*DMVR

Parental  QLREYQELMNVKLALDIEIATYRKLL-EGEESRLESGMQNMSIH-TKTT-SGYSGGLTY-GLTSP-GNYG
          .L.EYQEL.NVKL.LDI.I.TY.K.L.EGEES.LES.MQNMSIH..KTT..GYSGGLTY.GLTSP.....
Retrocopy LLPEYQELKNVKLGLDIKITTYCKVL>EGEESWLESRMQNMSIH>EKTT>NGYSGGLTY*GLTSPQPQLW

Parental  LSSFQSSFSSGG---SSPFSRTSSTKAVVVKK-IETRDGKLVSES
          ...F.S..S..G.....P..........VV.K.IETR...LVS.S
Retrocopy AERFPSPTSNSGGGLQAP*AAPAPPRSMVVQK>IETREEDLVSHS

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_2795 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2795 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000006275	4 retrocopies	retro_tbel_1815, retro_tbel_2795 , retro_tbel_3853, retro_tbel_467,