RetrogeneDB ID: retro_tbel_4536

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_88962:9494..9943(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000001160
• Aliases: None
• Description: None

Sequence

>retro_tbel_4536
ATGGTGAACGTGTGGGTGGCCATGAAGGTCCAACTCCTCAGCAAGAGGGAGACCAAAGAAGAGGGAAGAATTATCGTGGA
AGTGAATGGCAAGGTGGCAAAAATCTAGAATTTAAAGGTGAACAGTTGACCAGATCGCTTCAGGGACTCCCAGAAGAAGG
TTGTGGCATTTGGTTTTGATTACTGCTATTGGTCAGTCAACCCAGAGGATCCCCAGTTTACATCTCAGCTGTGATGTTCC
AGGATTTGGGGACTGAAGTACTATCAGGAGCTGCCAAAGGCTATAATATATGCCTTTTTGCCTATGGACAGACAGGCTCT
GGGAACACATATACCATGCTAGGGACCCCAGCCTCTGTTGGGCTGACACCCCGGATATCTGAGGGTCTCTTCATCAAGGA
GGAAGACTATGCCTCACTGCCTTCCTCCTGTAGGATAAAAGTGAGCTTC

Alignment

ORF - retro_tbel_4536 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.77 %
• Parental protein coverage: 58.27 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MANVRVAVRVRPLSKRETKEGGRIIVEVDGKVAKIKNLKVDSRPDRFGDSREKVVAFGFDYCYWSVNPED
          M.NV.VA..V..LSKRETKE.GRIIVEV.GKVAKI.NLKV.S.PDRF.DS..KVVAFGFDYCYWSVNPED
Retrocopy MVNVWVAMKVQLLSKRETKEEGRIIVEVNGKVAKI*NLKVNS*PDRFRDSQKKVVAFGFDYCYWSVNPED

Parental  PQFASQ-DVIFQDLGTEVLSGAAKGYNICLFAYGQTGSGKTYTMLGTP-SVGLT-RICEGLFIKEEDYAS
          PQF.SQ..V.FQDLGTEVLSGAAKGYNICLFAYGQTGSG.TYTMLGTP.SVGLT.RI.EGLFIKEEDYAS
Retrocopy PQFTSQ<AVMFQDLGTEVLSGAAKGYNICLFAYGQTGSGNTYTMLGTPASVGLTPRISEGLFIKEEDYAS

Parental  LGSSCRIKVSF
          L.SSCRIKVSF
Retrocopy LPSSCRIKVSF

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_4536 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4536 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000001160	1 retrocopy	retro_tbel_4536 ,