RetrogeneDB ID: retro_tbel_1283

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_4321:51926..52437(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF622
• Ensembl ID: ENSTBEG00000006779
• Aliases: None
• Description: zinc finger protein 622 [Source:HGNC Symbol;Acc:30958]

Sequence

>retro_tbel_1283
GAGAATACTGAAATAATGGACAATATGGAGGAGCAGGATACAGAGGAGAAAAGCCTGGGAGAAGTCCACCTCTCAATGCC
ATCCCTAAAACAGACTGCTTATTTTGTCCCCATCATTCAAGCTCCCTCATGAAAAAATGTGGCTCATCTGACTAAAGCAC
ACAGCTTCTTTATTCCTGACATAGAATATCTTTCAGATCTTAAAGGACTGATTAAACATGTGGGAGAGAAAGTTGGTGCT
GGGAAGATTTACTTGTGGTGTAATGACAAAGGGAAATCCTTCTACTCCACAGAAGCTGTACAGGCACATATGAATGACAA
AAGCCACATGTAAACTCCTCACAGATGGTGGTGCTGCTTTGGAATTTGCAGACGTCTATGATTTTAGGAGTAGCTATCCA
GATCACAAGGAAGGGGAGGACCTTGATAAGGCTGAGGAGTTGCCCTCAGAAAAGAACTGGGAATATGATGATAAAACCAT
GAAGCTGATTCTGCCTCCTGGTGCCAGAGTC

Alignment

ORF - retro_tbel_1283 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.5 %
• Parental protein coverage: 63.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EDSEVMDDMEEQDAEE-EEAGGSPPVGAIPITDCLFCSHHSSSLMK-NVAHMTKVHSFFIPDIEYLSDLK
          E..E.MD.MEEQD.EE.E..G.SPP..AIP.TDCLFC.HHSSSLMK.NVAH.TK.HSFFIPDIEYLSDLK
Retrocopy ENTEIMDNMEEQDTEE<EKPGRSPPLNAIPKTDCLFCPHHSSSLMK>NVAHLTKAHSFFIPDIEYLSDLK

Parental  GLIKYLGEKVGVGKICLWCNEKGKSFYSTEAVQAHMNDKSH-CKLFTDGDAALEFADFYDFRSSYPDHKE
          GLIK..GEKVG.GKI.LWCN.KGKSFYSTEAVQAHMNDKSH.CKL.TDG.AALEFAD.YDFRSSYPDHKE
Retrocopy GLIKHVGEKVGAGKIYLWCNDKGKSFYSTEAVQAHMNDKSH>CKLLTDGGAALEFADVYDFRSSYPDHKE

Parental  GEDPDEAEEFPSEKNLEYDDETMELILPSGARV
          GED.D.AEE.PSEKN.EYDD.TM.LILP.GARV
Retrocopy GEDLDKAEELPSEKNWEYDDKTMKLILPPGARV

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_1283 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1283 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
Callithrix jacchus	ENSCJAG00000012047	1 retrocopy	retro_cjac_4226,
Rattus norvegicus	ENSRNOG00000049087	1 retrocopy	retro_rnor_2676,
Tupaia belangeri	ENSTBEG00000006779	1 retrocopy	retro_tbel_1283 ,