RetrogeneDB ID: retro_tbel_3076

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_129281:51897..52226(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000012532
• Aliases: None
• Description: None

Sequence

>retro_tbel_3076
ATTCAACTTCCGCCCGAAGCAAATAGGATTTTATATATAATAAATGTGCCTTACAAAATCATAGCTGAAGAAACGTATGA
CTATTTGGACCTATTTGTCAAATCAGAATGGGGAACACACCTGGAACTAGAGGAACAGCTTACGTGGTGGTGTATGTAGA
CATCTTTGATGCCAAGAATGCATGCGATCATCTATCAGGATTCAATGTTTGTACCAGATACCTTGTGGTTTTGTACTATA
ATTCCAAAAGATCATTTTAGAAGATAGGCACAGAGGAGAAACAGCTAAAGCTTCTCAAGGAGAAATACAACATCAACAGA
GATACACCA

Alignment

ORF - retro_tbel_3076 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.14 %
• Parental protein coverage: 99.13 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IRLPPEVNRILYIRNLPYKITAEEMYD-IFGKYGPIRQIRVGNTPETRGTAY-VVYEDIFDAKNACDHLS
          I.LPPE.NRILYI.N.PYKI.AEE.YD..FG...PI.QIR.GNTP.TRGTAY.VVY.DIFDAKNACDHLS
Retrocopy IQLPPEANRILYIINVPYKIIAEETYD<LFG---PICQIRMGNTPGTRGTAYVVVYVDIFDAKNACDHLS

Parental  GFNVCNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKYGINTDPP
          GFNVC.RYLVVLYYN..R.F.K..T...E.QLKLLKEKY.IN.D.P
Retrocopy GFNVCTRYLVVLYYNSKRSF*KIGT--EEKQLKLLKEKYNINRDTP

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_3076 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3076 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000689	3 retrocopies	retro_chof_1217, retro_chof_2457, retro_chof_351,
Myotis lucifugus	ENSMLUG00000002473	1 retrocopy	retro_mluc_1529,
Tupaia belangeri	ENSTBEG00000012532	5 retrocopies	retro_tbel_1722, retro_tbel_3076 , retro_tbel_3766, retro_tbel_3886, retro_tbel_829,