RetrogeneDB ID: retro_ttru_805

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3497:99026..99382(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RHOQ
• Ensembl ID: ENSTTRG00000011892
• Aliases: None
• Description: ras homolog family member Q [Source:HGNC Symbol;Acc:17736]

Sequence

>retro_ttru_805
TGCTTCTCTGTGGTAAATCGAGCCTCATGTCAAAATGTGAAAGAGGAGTGGGTACTAGAACTTAAGGAATACGCACCAAA
TGTACCCTTTTTATTCATAGGAACTCAGATTATCTCCGAGATAACCCCAAAACTTTAGCAAGACTGAATGATATGAAGGA
AAAATCTATATGTGTGGAACAAGGACAGAAACTAACAAAAGAGATAGGAGCGTGCTGCTCTGTGGAATGTTCAGCTTTAA
CTCGGAAGGGATTGAAGACTGTTTTTGATGAGGCTATCATAGCCATTTTAACTCCAAAGAAACACACAGTAAAAAAAAGA
ATAGGATCAAGATGTATAAACTGTTGTTTAATTACG

Alignment

ORF - retro_ttru_805 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.5 %
• Parental protein coverage: 86.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  CFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQID-LRDDPKTLARLNDMKEKPICVEQGQKLAKEI
          CFSVVN.AS.QNVKEEWV.ELKEYAPNVPFL.IGTQI..LRD.PKTLARLNDMKEK.ICVEQGQKL.KEI
Retrocopy CFSVVNRASCQNVKEEWVLELKEYAPNVPFLFIGTQII<LRDNPKTLARLNDMKEKSICVEQGQKLTKEI

Parental  GACCYVECSALTQKGLKTVFDEAIIAILTPKKHTVKKRIGSRCINCCLIT
          GACC.VECSALT.KGLKTVFDEAIIAILTPKKHT....IGSRCINCCLIT
Retrocopy GACCSVECSALTRKGLKTVFDEAIIAILTPKKHTXXXXIGSRCINCCLIT

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_805 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_805 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 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006082	1 retrocopy	retro_amel_383,
Choloepus hoffmanni	ENSCHOG00000000549	3 retrocopies	retro_chof_2030, retro_chof_457, retro_chof_914,
Erinaceus europaeus	ENSEEUG00000015226	1 retrocopy	retro_eeur_129,
Echinops telfairi	ENSETEG00000019234	3 retrocopies	retro_etel_1468, retro_etel_596, retro_etel_672,
Felis catus	ENSFCAG00000015608	1 retrocopy	retro_fcat_795,
Myotis lucifugus	ENSMLUG00000001567	1 retrocopy	retro_mluc_595,
Pteropus vampyrus	ENSPVAG00000013691	1 retrocopy	retro_pvam_611,
Rattus norvegicus	ENSRNOG00000015415	1 retrocopy	retro_rnor_473,
Sus scrofa	ENSSSCG00000008439	1 retrocopy	retro_sscr_102,
Tursiops truncatus	ENSTTRG00000001099	8 retrocopies	retro_ttru_1029, retro_ttru_1065, retro_ttru_1188, retro_ttru_1599, retro_ttru_1904, retro_ttru_318, retro_ttru_379, retro_ttru_825,
Tursiops truncatus	ENSTTRG00000005708	2 retrocopies	retro_ttru_118, retro_ttru_54,
Tursiops truncatus	ENSTTRG00000011892	1 retrocopy	retro_ttru_805 ,