RetrogeneDB ID: retro_tbel_2068

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_896:374847..375219(+)
• Located in intron of: ENSTBEG00000000846

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFS4
• Ensembl ID: ENSTBEG00000004605
• Aliases: None
• Description: NADH dehydrogenase (ubiquinone) Fe-S protein 4, 18kDa (NADH-coenzyme Q reductase) [Source:HGNC Symbol;Acc:7711]

Sequence

>retro_tbel_2068
CAGGCAGTGGCTATAGCTGCCATTTCCATTTCAAGGGTTCCTACCAGGTTGCTGAACACATTCATGTGGAGGCTGGCACA
GGACCAAACTCGAGGCATACAACTCATAACAGTTGATGAAAAATTGGATATTACTACATTAACTGATGTTCCAGAAGAGC
ATGTCAAAACTAGAAAAGTAAGGATTTTTGTTCCTGCTTGCAATAATGTGCAGTCTGGAATAAATAACACAAAGAAATGG
AAGCTGGAGTTTGATAACAGGGAGCGATGGGAAACTACTTTGATGGGTTGGATATCAACCACTGATCCCTTGTCTAACAT
GGTTCTAACCTTCATTACTAAAGAAGATACAGTCACCTTTGCAGAAAATAAT

Alignment

ORF - retro_tbel_2068 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.26 %
• Parental protein coverage: 87.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RAVAIAAISVSRVPTRLLSTSTWRLAQDQTRSTQLITVDEKLDITTLTGVPEEHIKTRKVRIFVPARNNM
          .AVAIAAIS.SRVPTRLL.T..WRLAQDQTR..QLITVDEKLDITTLT.VPEEH.KTRKVRIFVPA.NN.
Retrocopy QAVAIAAISISRVPTRLLNTFMWRLAQDQTRGIQLITVDEKLDITTLTDVPEEHVKTRKVRIFVPACNNV

Parental  QSGVNNTKKWKMEFDTRERWENPLMGWASTADPLSNMVLTFSTKEDAVAFAEKN
          QSG.NNTKKWK.EFD.RERWE..LMGW.ST.DPLSNMVLTF.TKED.V.FAE.N
Retrocopy QSGINNTKKWKLEFDNRERWETTLMGWISTTDPLSNMVLTFITKEDTVTFAENN

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_2068 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2068 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.

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000005452	1 retrocopy	retro_cpor_1111,
Erinaceus europaeus	ENSEEUG00000015851	3 retrocopies	retro_eeur_133, retro_eeur_30, retro_eeur_347,
Macropus eugenii	ENSMEUG00000001362	1 retrocopy	retro_meug_651,
Microcebus murinus	ENSMICG00000015138	1 retrocopy	retro_mmur_355,
Monodelphis domestica	ENSMODG00000019465	1 retrocopy	retro_mdom_1227,
Pongo abelii	ENSPPYG00000015455	1 retrocopy	retro_pabe_193,
Sus scrofa	ENSSSCG00000016893	1 retrocopy	retro_sscr_999,
Tupaia belangeri	ENSTBEG00000004605	1 retrocopy	retro_tbel_2068 ,