RetrogeneDB ID: retro_ttru_483

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2435:153696..154538(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: H2AFY
• Ensembl ID: ENSTTRG00000006115
• Aliases: None
• Description: H2A histone family, member Y [Source:HGNC Symbol;Acc:4740]

Sequence

>retro_ttru_483
ATGTCCAGCCGGGGTGAGAAGAAGTCCGCTAAAAGTCCCGGTCCGCCAAGTCAGAAGTCATCTTCCCTGTGGGCCGGATG
CTGCGGTACATCAAGAAAGGCCACCCCGAGTACAGGATCGAAGTGGGCGCGCCTGTGTACATGGCCGCCGTCCTGGAGTA
CCTGACAGCGGAGATTCTGGAGCTGGCTGGCAATGCAGCAAGAGACAACAAGAAGGGCCGGGTCACGCCCCGGCACATCC
TGCTGGCCGTGGCCAACGATGAAGAGCTGAATCAGCTGCTAAAAGGAGTCACCATCGCCAGCGGGGGAGTGTTACCAAAC
ATCCATCCAGAGTTGCTACCGAAGAAACAAGGATCCAAAGGGAAGTCGGAAGCCATCATCACACCACCCCCAGCCAAAAA
GGCCAAGTCTCCGTCCCAGAAGAAGCCCGTGTCTAAGAAAGCAGGGGGCAAGAACAGGGCCTGGAAATCCAAGAAGCAGG
GAGCAGTCAGCAAGGCAGCCAGCGCTGACAGCACGACCGAGGGCACACTCGCCGATGGCTTCACTGTGCTCTCCACCAAG
AGCCTCTTCCTCGGCCAGAAGCCAAACCTTATTCACAGTGAAATCAGTAATTTAGCGGGCTTTGAGGTGGAGGCCATAAT
CAATCCTACCAATGCTGACATTGACCTTAAAGAGGAACTAGGAAACACGCTGGAGAAGAAGGGTGGCAAGGAGTTTGTGG
AAGCTGTTCTGGAACTCCGGAAAAAGAACGGGCCCTTGGAATTAGCTGGAGCCGCTGTCAGCGCAGGCCATGGCCTGCCC
GCCAAGTTTGTGATCCACTGTAACAGTCCCATCTGGGGTGCA

Alignment

ORF - retro_ttru_483 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.9 %
• Parental protein coverage: 76.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSSRGGKKKSTKT-SRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAGNAAR
          MSSRG..KKS.K..SRSAK..VIFPVGRMLRYIKKGHP.YRI.VGAPVYMAAVLEYLTAEILELAGNAAR
Retrocopy MSSRG-EKKSAKS<SRSAKSEVIFPVGRMLRYIKKGHPEYRIEVGAPVYMAAVLEYLTAEILELAGNAAR

Parental  DNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKRGSKGKLEAIITPPPAKKAKSP
          DNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELL.KK.GSKGK.EAIITPPPAKKAKSP
Retrocopy DNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLPKKQGSKGKSEAIITPPPAKKAKSP

Parental  SQKKPVSKKAGGKKGARKSKKKQGEVSKAASADSTTEGTPADGFTVLSTKSLFLGQKLNLIHSEISNLAG
          SQKKPVSKKAGGK..A.KS.KKQG.VSKAASADSTTEGT.ADGFTVLSTKSLFLGQK.NLIHSEISNLAG
Retrocopy SQKKPVSKKAGGKNRAWKS-KKQGAVSKAASADSTTEGTLADGFTVLSTKSLFLGQKPNLIHSEISNLAG

Parental  FEVEAIINPTNADIDLKDDLGNTLEKKGGKEFVEAVLELRKKNGPLEVAGAAVSAGHGLPAKFVIHCNSP
          FEVEAIINPTNADIDLK..LGNTLEKKGGKEFVEAVLELRKKNGPLE.AGAAVSAGHGLPAKFVIHCNSP
Retrocopy FEVEAIINPTNADIDLKEELGNTLEKKGGKEFVEAVLELRKKNGPLELAGAAVSAGHGLPAKFVIHCNSP

Parental  VWGA
          .WGA
Retrocopy IWGA

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_483 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_483 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	ENSTTRG00000006115	1 retrocopy	retro_ttru_483 ,