RetrogeneDB ID: retro_ttru_830

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_359:242314..242550(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFB1
• Ensembl ID: ENSTTRG00000008130
• Aliases: None
• Description: NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 1, 7kDa [Source:HGNC Symbol;Acc:7695]

Sequence

>retro_ttru_830
GTGGCTGGGCTTACCGCTGCCCTTGGTCGTGGGGTTGTTGTTGGCACCAAGGCCCCAGCGTTCATGATGAACTTACTTCA
GACTGTACGTGACTACTGGGTACATATACTTGCCCCTTTGGGATTTGTCTTTGGATGTTGTCTAGACAGAAAACATGATG
AAAAGCTAACTGGCTTCTGGAACAAGAGTCTGTTATTTAAAAGGAACTGAGGCCCAATGAAGAAGTCATCTGGAAA

Alignment

ORF - retro_ttru_830 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.0 %
• Parental protein coverage: 75.24 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VAGLTAALGRGLVVVPEASAFMMNLLQIVRDHWVHILVPVGFVVGCYLDRKNDEKLIAFRNKSLLYKR-E
          VAGLTAALGRG.VV...A.AFMMNLLQ.VRD.WVHIL.P.GFV.GC.LDRK.DEKL..F.NKSLL.KR.E
Retrocopy VAGLTAALGRGVVVGTKAPAFMMNLLQTVRDYWVHILAPLGFVFGCCLDRKHDEKLTGFWNKSLLFKR<E

Parental  LTPSEEVTWK
          L.P.EEV.WK
Retrocopy LRPNEEVIWK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_830 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_830 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus 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 11 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014837	1 retrocopy	retro_amel_1060,
Callithrix jacchus	ENSCJAG00000018067	5 retrocopies	retro_cjac_1027, retro_cjac_1053, retro_cjac_1330, retro_cjac_2586, retro_cjac_3294,
Homo sapiens	ENSG00000183648	2 retrocopies	retro_hsap_2646, retro_hsap_311,
Macaca mulatta	ENSMMUG00000022428	2 retrocopies	retro_mmul_1520, retro_mmul_538,
Nomascus leucogenys	ENSNLEG00000017129	1 retrocopy	retro_nleu_652,
Ochotona princeps	ENSOPRG00000012731	2 retrocopies	retro_opri_22, retro_opri_992,
Pongo abelii	ENSPPYG00000006076	1 retrocopy	retro_pabe_2325,
Pan troglodytes	ENSPTRG00000006649	2 retrocopies	retro_ptro_1782, retro_ptro_253,
Pteropus vampyrus	ENSPVAG00000015319	1 retrocopy	retro_pvam_642,
Tursiops truncatus	ENSTTRG00000008130	2 retrocopies	retro_ttru_1515, retro_ttru_830 ,
Vicugna pacos	ENSVPAG00000003502	2 retrocopies	retro_vpac_257, retro_vpac_39,