RetrogeneDB ID: retro_ttru_588

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2787:86737..87119(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP5G3
• Ensembl ID: ENSTTRG00000011524
• Aliases: None
• Description: ATP synthase, H+ transporting, mitochondrial Fo complex, subunit C3 (subunit 9) [Source:HGNC Symbol;Acc:843]

Sequence

>retro_ttru_588
ATGTGCGCCTGCGCAAGCTCGCCTGCACCCTGCTCTGATCCGAGTTGGATCCAGAATTGCATACAGACCAATTTCTGCCT
CAGTGTTATCTCGACCAGAGGCTAGGGCTGGAGAGGGCTCTTCAGTACTTAATGGGGCCCAGAATGGTGTGTCTCAGTTA
ATCCAAAGGGAGTTTTAGACCAGTGCAATCAGCAGAGACATTGATACTACAGCCAATTTTATTGGTGCAGGTGCTGCAGC
ACTAGGAGTGGCTGATTCTGGTGCTGTTATGGGAACAGCCTTTGGCAGCCTCATCATTGGTTTCGCCAGAAACCCTTCGC
TGAAGCAGCAACTGTTCTCACACGCTATCCTGGGATTTGACTTGTCTGAAGCTATGGGTCTC

Alignment

ORF - retro_ttru_588 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.31 %
• Parental protein coverage: 90.78 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MFACA-KLACT-PALIRAGSRVAYRPISASVLSRPEARTGESSTVFNGAQNGVSQLIQREFQTSAVSRDI
          M.ACA.KLACT.PALIR.GSR.AYRPISASVLSRPEAR.GE.S.V.NGAQNGVSQLIQREF.TSA.SRDI
Retrocopy MCACA<KLACT<PALIRVGSRIAYRPISASVLSRPEARAGEGSSVLNGAQNGVSQLIQREF*TSAISRDI

Parental  DTAAKFIGAGAATVGVAGSGAGIGTVFGSLIIGYARNRSLKQQLFSYAILGFALSEAMGL
          DT.A.FIGAGAA..GVA.SGA..GT.FGSLIIG.ARN.SLKQQLFS.AILGF.LSEAMGL
Retrocopy DTTANFIGAGAAALGVADSGAVMGTAFGSLIIGFARNPSLKQQLFSHAILGFDLSEAMGL

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_588 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_588 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 12 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002944	1 retrocopy	retro_btau_838,
Canis familiaris	ENSCAFG00000013366	2 retrocopies	retro_cfam_4, retro_cfam_5,
Choloepus hoffmanni	ENSCHOG00000012592	3 retrocopies	retro_chof_189, retro_chof_2561, retro_chof_508,
Callithrix jacchus	ENSCJAG00000008207	3 retrocopies	retro_cjac_279, retro_cjac_38, retro_cjac_4183,
Dasypus novemcinctus	ENSDNOG00000010440	2 retrocopies	retro_dnov_235, retro_dnov_396,
Loxodonta africana	ENSLAFG00000010768	1 retrocopy	retro_lafr_120,
Myotis lucifugus	ENSMLUG00000012822	1 retrocopy	retro_mluc_23,
Macaca mulatta	ENSMMUG00000003954	1 retrocopy	retro_mmul_148,
Monodelphis domestica	ENSMODG00000009520	3 retrocopies	retro_mdom_1070, retro_mdom_295, retro_mdom_545,
Tupaia belangeri	ENSTBEG00000012159	1 retrocopy	retro_tbel_54,
Tursiops truncatus	ENSTTRG00000008526	1 retrocopy	retro_ttru_279,
Tursiops truncatus	ENSTTRG00000011524	3 retrocopies	retro_ttru_268, retro_ttru_510, retro_ttru_588 ,