RetrogeneDB ID: retro_tbel_3853

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_2370:45491..46250(-)
• 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_3853
GAGATCCGTGAGCTCCAGTCCCAGATCTCCGACAGGTCCGTGGTCCTGTCCATGGACAACAGCCGCTCCCTGGACATGGA
CGGCATCATTGCCGAGGTCCGCGCCCAGTATGAAGAAATCGCCAACCACAGCCGGGCTGAAGTTGAGAACATGTACCAAA
TCAAGTATGAGGAGCTGCAGACGCTGGTTGGGAAGCACGGGGATGACCTGCGGCGCACGAAGACTGAGATCTCTGAGATG
AACCGGAACATTAGCCGGCTCCAGGCTGAGATTGAGGGCCTTAAGGGCCAGAGAGCTTCCCTGGAGGCCGCCATTACTGA
TGCTGAACAGCGTGGGGAGCTGGCCATTAAGGATGCCAATGCCAAGCTGGCTCAGCTAGAGGCAGCTCTGCAGCAGGCCA
AGCAGGACATGGCACGGCAGCTGCGCGAATACCAGGAGCTTATGAATGTCAAGCTGGCCCTGGACATCGAGATCGCCACC
TACCGCAAGCTGCTGGAGGGCGAGGAGAGCCCGCTGAAGTCTGGGATGCAGAACATGAGTATCCATACGAAGACCACTAG
CGGCTACTCAGGTGGGCTGACCTATGGGGGCCTCACAAGTCCCGGCCTCAACTACGGCCTGAGCTCCTTCCAGTCCAGCT
TCAGCTCTGGAGGCTCTAGCCCCTTCAGCCGCACCAGCTCCACCAAGGCCGTGGTCGTGAAGAAGATAGAGACACGTGAT
GGGAAGCTGGTGTCCGAGTCCTCTGACGTCCTGCCCAAG

Alignment

ORF - retro_tbel_3853 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.05 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EIRELQSQISDTSVVLSMDNSRSLDMDGIIAEVRAQYEEIANRSRAEAENMYQIKYEELQTLAGKHGDDL
          EIRELQSQISD.SVVLSMDNSRSLDMDGIIAEVRAQYEEIAN.SRAE.ENMYQIKYEELQTL.GKHGDDL
Retrocopy EIRELQSQISDRSVVLSMDNSRSLDMDGIIAEVRAQYEEIANHSRAEVENMYQIKYEELQTLVGKHGDDL

Parental  RRTKTEISEMNRNISRIQAEIEGLKGQRASLEAAIADAEQRGELAIKDANAKLAQLEAALQQAKQDMARQ
          RRTKTEISEMNRNISR.QAEIEGLKGQRASLEAAI.DAEQRGELAIKDANAKLAQLEAALQQAKQDMARQ
Retrocopy RRTKTEISEMNRNISRLQAEIEGLKGQRASLEAAITDAEQRGELAIKDANAKLAQLEAALQQAKQDMARQ

Parental  LREYQELMNVKLALDIEIATYRKLLEGEESRLESGMQNMSIHTKTTSGYSGGLTY-GLTSPG-NYGLSSF
          LREYQELMNVKLALDIEIATYRKLLEGEES.L.SGMQNMSIHTKTTSGYSGGLTY.GLTSPG.NYGLSSF
Retrocopy LREYQELMNVKLALDIEIATYRKLLEGEESPLKSGMQNMSIHTKTTSGYSGGLTYGGLTSPGLNYGLSSF

Parental  QSSFSSGGSSPFSRTSSTKAVVVKKIETRDGKLVSESSDVLPK
          QSSFSSGGSSPFSRTSSTKAVVVKKIETRDGKLVSESSDVLPK
Retrocopy QSSFSSGGSSPFSRTSSTKAVVVKKIETRDGKLVSESSDVLPK

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_3853 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3853 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,