RetrogeneDB ID: retro_tbel_2120

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_10097:185906..186459(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000001413
• Aliases: None
• Description: None

Sequence

>retro_tbel_2120
TTAGACTCTGCAGAAGATTTGGAGAAGTTAAGAAATGGTGGAAGTTTGACGTTCCAGCAAGTGCCAATGGTTGAGATTGA
TGGGACGAAGTTGGTGCAGACCAGAACCTTTCTCAACTATATTACCACCAAATACAACCTCTATGGCAAAGACAAGGAGA
GAGCCCTGATTGATACATATGTAGAAGGGATAGCATATTTGGATGAAATGATCATTCTGCCAATGTGTCCACCTGAGCAA
AAGGATGCCAAGGTTGCTTTGATTAAAAAGAGATCAACAAACTATTATTTTCCTGCCTTTGAAAAGGTGTTTAAAGAGCC
ATGGACTGGAGTACCTGGTGGGCAACCAGCTGAGCAAGACTGACATTCATTTGGTTGAACTTATCTATATAGTGAAAGAG
CTTGACCCCAGCCTCATCACCAACTTCCCTCTGCTGAAGGCTCTGAAAACCAGAATCAGCAACTTCCCCACTGTGAAGAA
GTTTCTGCAGCCTGGCAGCCAGAGGAAGCCTCCTTTGGATGAGGAAACTTTAGAGAAAGCAAAGAAAATTTTC

Alignment

ORF - retro_tbel_2120 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.07 %
• Parental protein coverage: 83.78 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IDSEEDLDKLRNDGSLMFQQVPMVEIDGMKMVQTRAILNYIATKYNLYGKDMKERALIDMYVEGMADLYE
          .DS.EDL.KLRN.GSL.FQQVPMVEIDG.K.VQTR..LNYI.TKYNLYGKD.KERALID.YVEG.A.L.E
Retrocopy LDSAEDLEKLRNGGSLTFQQVPMVEIDGTKLVQTRTFLNYITTKYNLYGKD-KERALIDTYVEGIAYLDE

Parental  MILLLPICPPEQKDAKVALIKERTINRYFPVFEKV-LKSHGQDYLVGNKLSKADIHLLELLYAVEEFDPS
          MI.L.P.CPPEQKDAKVALIK.R..N.YFP.FEKV.LKSHG..YLVGN.LSK.DIHL.EL.Y.V.E.DPS
Retrocopy MIIL-PMCPPEQKDAKVALIKKRSTNYYFPAFEKV>LKSHGLEYLVGNQLSKTDIHLVELIYIVKELDPS

Parental  LITDFPLLKALKARISNLPTVKKFLQPGSQRKPLADEKTVEKARKIF
          LIT.FPLLKALK.RISN.PTVKKFLQPGSQRKP..DE.T.EKA.KIF
Retrocopy LITNFPLLKALKTRISNFPTVKKFLQPGSQRKPPLDEETLEKAKKIF

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_2120 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2120 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011287	1 retrocopy	retro_cjac_4055,
Dasypus novemcinctus	ENSDNOG00000009819	1 retrocopy	retro_dnov_2390,
Homo sapiens	ENSG00000182793	1 retrocopy	retro_hsap_2366,
Gorilla gorilla	ENSGGOG00000027587	1 retrocopy	retro_ggor_1797,
Microcebus murinus	ENSMICG00000002208	1 retrocopy	retro_mmur_350,
Otolemur garnettii	ENSOGAG00000003726	1 retrocopy	retro_ogar_345,
Pan troglodytes	ENSPTRG00000032453	1 retrocopy	retro_ptro_1732,
Tupaia belangeri	ENSTBEG00000001413	1 retrocopy	retro_tbel_2120 ,