RetrogeneDB ID: retro_ttru_1674

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_84935:59952..60905(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: POF1B
• Ensembl ID: ENSTTRG00000004972
• Aliases: None
• Description: premature ovarian failure, 1B [Source:HGNC Symbol;Acc:13711]

Sequence

>retro_ttru_1674
TTATTAGAACATATGCAGAGAACTGGAGGAAGCAAACAGGACTTTGAGTCTACAGATGAGTCAGAAGACATTGAATCAGT
GATTCCAAAAGGACTGTAAGAACTTACAAAACAGCAAATTCACTGTATGCTGCAGATGAGGGGTGTGTCTGATAAATCAT
TACGGCTAGTGCTGTCCACATTCAGCAACATACAGGAGGAGCGAGGACATCTTCACAAGGACTTGACATCCCTGGAAAAT
GACAAGATAATACTTGAGAAAGACTTGGCATTCAAAGAAACTCAAATAAAAGAGTATGAAGAACTCTTGGCATCAGTGAG
AGCAAATAATCACCAGCAGCAGCAAGGACTTCAAGACTCAACCTCAAAATGCCAAGCAAAGTGCCAAGCTTTGGAAGAAA
ACAATCTCTCTCTTCAGCGTATGTTATCAGACATAGAATATAGACTAAAAGAACTGGAATACTGTAAGCATAATTTAGAG
CAAGAGAAGAAAAATCTTAGAATGCAAGTTTCTGAGACTTGCACAGGCCCAATGCTGCAGGCTTAAATGGATGAGATTGG
CAACCATAACATGGAGATGGTAAAAAACATAAGAACGGAGAAAGACGGAGAGATCCGCAAACTAAGGACTCAATTAAATC
AGTACCAAAAAGATGTTTCAAGAAGAGAAGGAAGTTTCAGTGACTTCTAATTCAAGATTCATGATCTGACAAGCTTGCAG
GAAGACAAGGATTCCCTTATAAAGTGTCAGTCAGAGGAACTCTCGAAATTGAGACAAGAAATACATTCATCTCATAACCG
ACCCTTCAGTGGTGGAAGGACAACTATTAACACTAGAAAGTACAGAACACAATATCCAATCCTAGGCCTCCTGTATAATG
ACTATGAATATATACCACCAGGGAGTGACACACAGACTATTGTGATTGAGAAATGGAAGACAAATGTACTTGT

Alignment

ORF - retro_ttru_1674 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.76 %
• Parental protein coverage: 52.78 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LLEHLHRIGG-KQDFESTDESEDTESLIPKGLSEFTKQQIRYILQMRGMSDKSLRLVLSTFSNIREELGN
          LLEH..R.GG.KQDFESTDESED.ES.IPKGL.E.TKQQI...LQMRG.SDKSLRLVLSTFSNI.EE.G.
Retrocopy LLEHMQRTGGSKQDFESTDESEDIESVIPKGL*ELTKQQIHCMLQMRGVSDKSLRLVLSTFSNIQEERGH

Parental  LQNDLTSLENDKIRLEKDLAFKETQIKEYEELLASVRANNRQQQQGLQDSTS----KCQALEENNLSLRH
          L..DLTSLENDKI.LEKDLAFKETQIKEYEELLASVRANN.QQQQGLQDSTS....KCQALEENNLSL..
Retrocopy LHKDLTSLENDKIILEKDLAFKETQIKEYEELLASVRANNHQQQQGLQDSTSKCQAKCQALEENNLSLQR

Parental  TLSDIEYKLKELEYCKRNLEQENKNLKVQLSETCTGPMLQAKMAEIGNHYMEMVKSLRMEKDREICKLRT
          .LSDIEY.LKELEYCK.NLEQE.KNL..Q.SETCTGPMLQA.M.EIGNH.MEMVK..R.EKD.EI.KLRT
Retrocopy MLSDIEYRLKELEYCKHNLEQEKKNLRMQVSETCTGPMLQA*MDEIGNHNMEMVKNIRTEKDGEIRKLRT

Parental  QLNQYQKDVSRREGSCSDFQFKIHELTSLLEEKDSLIKHQSEELSKLRQEIYSSHNQPSSGGRTTITTRK
          QLNQYQKDVSRREGS.SDF.FKIH.LTSL.E.KDSLIK.QSEELSKLRQEI.SSHN.P.SGGRTTI.TRK
Retrocopy QLNQYQKDVSRREGSFSDF*FKIHDLTSLQEDKDSLIKCQSEELSKLRQEIHSSHNRPFSGGRTTINTRK

Parental  YRSQYPILGLLYDDYEYIPPGSDTQTIVIEK-IEDKWTC
          YR.QYPILGLLY.DYEYIPPGSDTQTIVIEK..EDK.TC
Retrocopy YRTQYPILGLLYNDYEYIPPGSDTQTIVIEK<MEDKCTC

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_1674 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1674 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000004972	1 retrocopy	retro_ttru_1674 ,