RetrogeneDB ID: retro_tbel_1280

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_4307:287772..288125(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF740
• Ensembl ID: ENSTBEG00000015437
• Aliases: None
• Description: zinc finger protein 740 [Source:HGNC Symbol;Acc:27465]

Sequence

>retro_tbel_1280
GCAAGTCTTCTGGCTTGTGAAGGCCTCGCAGGTGTGAGTTTGGTTCCTACTGCAGCCAGCAAGAAGACGATGCTGAGCCA
GATTGCCAGCAAGCAGGCCGAGAATGGCGAGAGGGCAGGTAGCTCTGATGTGCTGAGGTGCTCGAGTCAGGGCCATCGAA
AGACAGCGATAACTCTCAGAGCCGCAAAGATGATGACAGCTTGGCTGAGGCCTCTCACTCATAAAAGACTGTTAAAAAGG
TGGTGGTAGTGGAACAAAATGATTCTTTTCAAGTAAAGATACCCCAAAATTTTATTTGTGAACACTGCTTTGGAGCCTTT
AGGAGCAGTTACCACCTCAAGAGGCACATCCTT

Alignment

ORF - retro_tbel_1280 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.5 %
• Parental protein coverage: 62.3 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ASLLACEGLAGVSLVPTAASKKMMLSQIASKQAENGERAGSPDVLRCSSQGHR-KDSDKSRSRKDDDSLA
          ASLLACEGLAGVSLVPTAASKK.MLSQIASKQAENGERAGS.DVLRCSSQGHR.KDSD.S.SRKDDDSLA
Retrocopy ASLLACEGLAGVSLVPTAASKKTMLSQIASKQAENGERAGSSDVLRCSSQGHR<KDSDNSQSRKDDDSLA

Parental  EASHSKKTVKKAVVVVEQNGSFQVKIPKNFICEHCFGAFRSSYHLKRHIL
          EASHS.KTVKK.VVVVEQN.SFQVKIP.NFICEHCFGAFRSSYHLKRHIL
Retrocopy EASHS*KTVKK-VVVVEQNDSFQVKIPQNFICEHCFGAFRSSYHLKRHIL

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_1280 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1280 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
Dasypus novemcinctus	ENSDNOG00000012901	1 retrocopy	retro_dnov_1842,
Microcebus murinus	ENSMICG00000014191	1 retrocopy	retro_mmur_207,
Tupaia belangeri	ENSTBEG00000015437	1 retrocopy	retro_tbel_1280 ,