RetrogeneDB ID: retro_tbel_305

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_1693:154819..155245(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000013316
• Aliases: None
• Description: None

Sequence

>retro_tbel_305
ATGTCTGTAACTCTAGCTAAAAAAGTAAACATGGCCACCAAACCCTGCCTGCGTGCGACCACCAGGTTCCTGTTACATGT
AAATCATGTCCTCGTGGTTCTATATTTTATTAGCAGAAATCTTTTAAATGTAAAATACTCAGAGAAATCACCACCTACAG
AAAACAAGCACGAGGCCAAGAGGAGGTGAATAGAATTAGGAGAGGAAAGATAAATTCTGCGGTAAATAAAGATTTAGAAA
ACAGAAAGAGGTCTCGAAGTAACAGCCATTCAGATCATATCAGATGAGGAAGAGGAAGACCTAAAAGTCTATCTGCCAAA
AAACACGAGGAAGAAAGAAAAACAGGAAAAGGAAATTGACATCTATGTTAACCTCTCTGATGAAAAGACTTTCATGTTTT
CAGACACCTCTGCAGAAATAGAAAAA

Alignment

ORF - retro_tbel_305 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.85 %
• Parental protein coverage: 94.16 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MSVTRAKKVKMATKSC-PECDQQVPVACKSCPCGYIF-ISRKLLNAKYSEKSPPSTENKHEAKRRR-TER
          MSVT.AKKV.MATK.C.P.CD.QVPV.CKSCP.G.IF.ISR.LLN.KYSEKSPP.TENKHEAK.RR...R
Retrocopy MSVTLAKKVNMATKPC<PACDHQVPVTCKSCPRGSIF>ISRNLLNVKYSEKSPP-TENKHEAK-RR<VNR

Parental  VRREKINSTVNKDLENRKRSRSNSHSDHIRRGRGRPKSASAKKHEEE-REKQEKEIDIYANLSDEKAFVF
          .RR.KINS.VNKDLENRKRSRSNSHSDHIR.GRGRPKS.SAKKH.EE..EKQEKEIDIY.NLSDEK.F.F
Retrocopy IRRGKINSAVNKDLENRKRSRSNSHSDHIR*GRGRPKSLSAKKH-EE>KEKQEKEIDIYVNLSDEKTFMF

Parental  SVALAEINR
          S...AEI..
Retrocopy SDTSAEIEK

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_305 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_305 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003679	1 retrocopy	retro_cfam_1054,
Cavia porcellus	ENSCPOG00000010228	2 retrocopies	retro_cpor_1197, retro_cpor_1228,
Dasypus novemcinctus	ENSDNOG00000006412	2 retrocopies	retro_dnov_1512, retro_dnov_2463,
Tupaia belangeri	ENSTBEG00000013316	2 retrocopies	retro_tbel_3011, retro_tbel_305 ,
Tarsius syrichta	ENSTSYG00000008921	1 retrocopy	retro_tsyr_1758,