RetrogeneDB ID: retro_tbel_543

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_2394:0..276(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM177A1
• Ensembl ID: ENSTBEG00000009637
• Aliases: None
• Description: family with sequence similarity 177, member A1 [Source:HGNC Symbol;Acc:19829]

Sequence

>retro_tbel_543
GTAAGTAATGAAAGAGGCTTTGAAAATGTAGAACTGGGAATCATAGGAAAAAAGAAGAAAGTCCCCAGGAGAGTTATCCA
CTTTGTTAGTGGTGAAACGATGGAAGAATATAGCACAGATGAAGATGAAGTTGATGGCCTGGAGAAGAAAGATGTTTTAC
CTACTATTGATCCGACAAAACTTACCTGGGGCCCCAACTTATGGTTCTATATGCTTCGGGCTGCCACATCAACCCTCTCA
GTGTGTGACTTTCTTGGAGAGAAGATTGCATCTATT

Alignment

ORF - retro_tbel_543 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.83 %
• Parental protein coverage: 50.83 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VSNERGFENVELGIIGKKKKVPRRVIHFVSGETMEEYSTDEDEVDGLEKKDVLPTIDPTKLTWGPYLWFY
          VSNERGFENVELGIIGKKKKVPRRVIHFVSGETMEEYSTDEDEVDGLEKKDVLPTIDPTKLTWGP.LWFY
Retrocopy VSNERGFENVELGIIGKKKKVPRRVIHFVSGETMEEYSTDEDEVDGLEKKDVLPTIDPTKLTWGPNLWFY

Parental  MLRAATSTLSVCDFLGEKIASV
          MLRAATSTLSVCDFLGEKIAS.
Retrocopy MLRAATSTLSVCDFLGEKIASI

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_543 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_543 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009680	1 retrocopy	retro_btau_1026,
Sorex araneus	ENSSARG00000004821	1 retrocopy	retro_sara_443,
Tupaia belangeri	ENSTBEG00000009637	1 retrocopy	retro_tbel_543 ,