RetrogeneDB ID: retro_tbel_31

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_562:16292..17012(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000008665
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000015120
• Aliases: None
• Description: None

Sequence

>retro_tbel_31
CCTGAAGACTTGCGCCGTGAATTTGGTCGATATGGTCCTATAGTAGACGTTTACATTCCACTTGACTTCTACACTCGCCG
CCCGAGACGATTTGCTTATGTTCAATTTGAAGATGTTGGAGATGCTGAAGATGCTCTTTATAACCTCAAAAGAAAATGGG
TATGTGGCCGTCAAATTGAAATACAGTTTGCACAAAGTGATCGCAAAACACCAGGGCAAATGAAATCAAAAGAGCGTCAT
CCTTGTTCTCCAAGTGATCATAGGAGATCAAGAAGCCCCAGCCAAAGGAGAACTCGAAATCGAAGTTCGTCATGGGGAAG
AAACAGGCGGCCTTCTGACAGCCTTAAAGAGTCTCGACACAGGAGTTTTTCTTACAGCCAGTCTAAATCCCGTTCCAAAT
CACTACCAAGGCAGTCTACCTCAGCAAGGCAGTCAAGAACTCCAAGAAGGAATTCTGGTTCTAGGGGACGATCAAGGTCC
ACATCTTTACAAAAAAGACCCAAGTCAATAGGAAAATCACAATCAAGTTCACCTCAAAAGCAGACTAGCTCAGGAACAAA
ATCAAGATCACATGGAAGACATTCTGACTCCAAAGCAAGATCCCCATGTAAATCTCCCAGAGGGTATACCAATTCTGAAA
CTAAAGCACAAACAGCAAAACATTCCCATTTTCGGGCACATTGCAGATCTCGGAGTTACCTTCATAAAAACAGTTGGTGA

Alignment

ORF - retro_tbel_31 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.26 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PEDLRREFGRYGPIVDVYIPLDFYTRRPRGFAYLVIFEDVRDAEDALYNLNRKWVCGRQIEIQFAQGDRK
          PEDLRREFGRYGPIVDVYIPLDFYTRRPR.FAY.V.FEDV.DAEDALYNL.RKWVCGRQIEIQFAQ.DRK
Retrocopy PEDLRREFGRYGPIVDVYIPLDFYTRRPRRFAY-VQFEDVGDAEDALYNLKRKWVCGRQIEIQFAQSDRK

Parental  TPGQMKSKERHPCSPSDHRRSRSPSQRRTRSRSSS-GRNRRRSDSL-ESRHRRFSYSQSKSRSKSLPRRS
          TPGQMKSKERHPCSPSDHRRSRSPSQRRTR.RSSS.GRNRR.SDSL.ESRHR.FSYSQSKSRSKSLPR.S
Retrocopy TPGQMKSKERHPCSPSDHRRSRSPSQRRTRNRSSSWGRNRRPSDSLKESRHRSFSYSQSKSRSKSLPRQS

Parental  TSARQSRTPRRNSGS
          TSARQSRTPRRNSGS
Retrocopy TSARQSRTPRRNSGS

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_31 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_31 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000014941	1 retrocopy	retro_mmul_100,
Monodelphis domestica	ENSMODG00000018282	1 retrocopy	retro_mdom_1005,
Tupaia belangeri	ENSTBEG00000015120	1 retrocopy	retro_tbel_31 ,
Tupaia belangeri	ENSTBEG00000017716	1 retrocopy	retro_tbel_4154,