RetrogeneDB ID: retro_tbel_1815

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_5826:391237..391755(+)
• 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_1815
ATCTCTGAGATGAACCGGAACGTCCACCAGCTCCAGGCAGAGATCCCGGGCCTGCAAGGGCCAGAGAGATTCCCTGATGC
TGAGCAGCCTGGGGACCTGGCCATTAAGGATGCCCACCCCAAGCTGGCAGAGCTGGAGGCCGCCCTGAAGCAGGCCGGGC
AGGACATGGCGCACCAGCTGCACGAGCACCAGGAGCTCGCGACCTTCAGGCTAGCTCAGGACGCCGAGATCTACCTACCG
CAAGCGCTGGAGGGAGAGGAGAGCGGCTGGAGTCTGGGATGCAGAGCATGAGCAGCCATAGGAAGACCACCTGCAGCTAC
TCAGGTGGGCTGGCCTCAACCTGCAGGGGCCTCACAAGCTCTGGCCTCAACTGCGGCCTGAGCTCCTTCCAGTCCAGCTT
CTGCTCTGGCGGAGGCTCCAGCTCCTTTAGCTGCACCAGCTCCACCAAGGCGGTGGTTGTGAAGATTGAGATGCATGATG
GGAAGCTGGTGTCTGAGTCCTCTGGCGTCCTGCCCAAG

Alignment

ORF - retro_tbel_1815 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.07 %
• Parental protein coverage: 66.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ISRIQAEIEGLKGQRASLEAA--IADAEQRGELAIKDANAKLAQLEAALQQAKQDMARQLREYQELMNVK
          IS........L......L.......DAEQ.G.LAIKDA..KLA.LEAAL.QA.QDMA.QL.E.QEL....
Retrocopy ISEMNRNVHQLQAEIPGLQGPERFPDAEQPGDLAIKDAHPKLAELEAALKQAGQDMAHQLHEHQELATFR

Parental  LALDIEIATYRKLLEGEES-RLESGMQNMSIHTKTTSGYSGGLT---YGLTSPG-NYGLSSFQSSF-SSG
          LA.D.EI......LEGEES.RLESGMQ.MS.H.KTT..YSGGL.....GLTS.G.N.GLSSFQSSF.S.G
Retrocopy LAQDAEI-YLPQALEGEES<RLESGMQSMSSHRKTTCSYSGGLASTCRGLTSSGLNCGLSSFQSSFCSGG

Parental  GSSPFSRTSSTKAVVVKKIETRDGKLVSESSDVLPK
          GSS.FS.TSSTKAVVV.KIE..DGKLVSESS.VLPK
Retrocopy GSSSFSCTSSTKAVVV-KIEMHDGKLVSESSGVLPK

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_1815 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1815 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,