RetrogeneDB ID: retro_ttru_351

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1961:1272985..1273383(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF149
• Ensembl ID: ENSTTRG00000016450
• Aliases: None
• Description: ring finger protein 149 [Source:HGNC Symbol;Acc:23137]

Sequence

>retro_ttru_351
ACCGGAAATATAGTAGTCATTATTGTTAGCGACCCCAAAGGAAGAGAAATTGTGGATCTGGTGCAGAAAGACATTCCGGT
CACAATGACCATAGGGCTCGGCACACGGCACGTACAGGAGTTCATCAGCAGTCCGTCAGTGGTGTTTGTGGCCATCGCCT
TCATCACCATAATGATTATCTCATTAGCCTGGCTAATATTTTACTATATACAGCGCTTCCTATACACTGGCTCACAGTTT
GGAAGTCAGAGCCATAGAAAGAAACAAAGAAACTTATTGGGCAGCTTCCTCTTCATACTGTAAAGCATGGAGAAAAGGGA
ATTGATGTTGATGCTGAAAGTTGTGCAGTGTGTATTGAAAATTTTAAAGGAAAGAATGTTATCAGAATCCTGCCATGC

Alignment

ORF - retro_ttru_351 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.55 %
• Parental protein coverage: 54.07 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TGSIVVIMVSYPKGREIVDLVQKDIPVTMTIGLGTRHVQEFISGQSVVFVAIAFITMMIISLAWLIFYYI
          TG.IVVI.VS.PKGREIVDLVQKDIPVTMTIGLGTRHVQEFIS..SVVFVAIAFIT.MIISLAWLIFYYI
Retrocopy TGNIVVIIVSDPKGREIVDLVQKDIPVTMTIGLGTRHVQEFISSPSVVFVAIAFITIMIISLAWLIFYYI

Parental  QRFLYTGSXXXXXSHR-KETKKLIGQLPLHTVKHGEKGIDVDAESCPVCIENFKGKDVIRILPC
          QRFLYTGS.....SHR.KETKKLIGQLPLHTVKHGEKGIDVDAESC.VCIENFKGK.VIRILPC
Retrocopy QRFLYTGSQFGSQSHR<KETKKLIGQLPLHTVKHGEKGIDVDAESCAVCIENFKGKNVIRILPC

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_351 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_351 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 8 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012057	2 retrocopies	retro_chof_290, retro_chof_555,
Dasypus novemcinctus	ENSDNOG00000011956	3 retrocopies	retro_dnov_2168, retro_dnov_534, retro_dnov_580,
Macropus eugenii	ENSMEUG00000014821	1 retrocopy	retro_meug_417,
Myotis lucifugus	ENSMLUG00000007110	1 retrocopy	retro_mluc_1684,
Rattus norvegicus	ENSRNOG00000013946	2 retrocopies	retro_rnor_1406, retro_rnor_2527,
Tursiops truncatus	ENSTTRG00000001298	1 retrocopy	retro_ttru_1062,
Tursiops truncatus	ENSTTRG00000007536	1 retrocopy	retro_ttru_6,
Tursiops truncatus	ENSTTRG00000016450	1 retrocopy	retro_ttru_351 ,