RetrogeneDB ID: retro_tbel_865

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_3176:2819..3036(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFA4L2
• Ensembl ID: ENSTBEG00000015731
• Aliases: None
• Description: NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4-like 2 [Source:HGNC Symbol;Acc:29836]

Sequence

>retro_tbel_865
AAGAAGCATCCAAGTTTGATTCCCCTGTTTCTATTTACGGGAGCTGGAGGTTCGGGAGCAGCACTATCTCATGCGTTTGG
CGGTGTTCAATCCTGATGTCTCTTGGGACAGAAAGAATAACCCTGAACCCTGGAACAAGCTGGGTCCCAACGATCAATGC
AGGTTGTACTCAGTGAATGAGGATTACAGCAAACTGAAGAAAGAAGGCCCAGACTTT

Alignment

ORF - retro_tbel_865 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.16 %
• Parental protein coverage: 83.91 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KRHPGLIPMIGFIGLGMGSAAL-YLLRLALRSPDVCWDRKNNPEPWNRLSPNDQYKFLAVSTDYKKLKKD
          K.HP.LIP...F.G.G.GS.A..YL.RLA...PDV.WDRKNNPEPWN.L.PNDQ.....V..DY.KLKK.
Retrocopy KKHPSLIPLFLFTGAG-GSGAA>YLMRLAVFNPDVSWDRKNNPEPWNKLGPNDQCRLYSVNEDYSKLKKE

Parental  RPDF
          .PDF
Retrocopy GPDF

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_865 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_865 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 39 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000004466	1 retrocopy	retro_etel_52,
Homo sapiens	ENSG00000185633	2 retrocopies	retro_hsap_4698, retro_hsap_4857,
Loxodonta africana	ENSLAFG00000021950	1 retrocopy	retro_lafr_21,
Macropus eugenii	ENSMEUG00000014358	3 retrocopies	retro_meug_1159, retro_meug_1559, retro_meug_467,
Nomascus leucogenys	ENSNLEG00000017371	10 retrocopies	retro_nleu_1015, retro_nleu_1048, retro_nleu_1851, retro_nleu_1917, retro_nleu_2588, retro_nleu_2952, retro_nleu_363, retro_nleu_732, retro_nleu_862, retro_nleu_956,
Ictidomys tridecemlineatus	ENSSTOG00000020476	1 retrocopy	retro_itri_23,
Tupaia belangeri	ENSTBEG00000015731	5 retrocopies	retro_tbel_3586, retro_tbel_4134, retro_tbel_4193, retro_tbel_822, retro_tbel_865 ,
Tupaia belangeri	ENSTBEG00000016629	16 retrocopies	retro_tbel_1049, retro_tbel_1848, retro_tbel_2008, retro_tbel_2058, retro_tbel_2194, retro_tbel_2274, retro_tbel_2423, retro_tbel_2761, retro_tbel_3262, retro_tbel_4255, retro_tbel_4309, retro_tbel_436, retro_tbel_4380, retro_tbel_4426, retro_tbel_4719, retro_tbel_815,