RetrogeneDB ID: retro_ttru_292

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1788:662633..664093(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSP90AB1
• Ensembl ID: ENSTTRG00000006924
• Aliases: None
• Description: heat shock protein 90kDa alpha (cytosolic), class B member 1 [Source:HGNC Symbol;Acc:5258]

Sequence

>retro_ttru_292
ATGCCTGAGGAAGTACACCATGGAGAGGAGGAGGTGGAGACTTTTGCTTTCCAGGCAGAAATTGCCCAACTCATGTCTCT
TATTATCAATACCTTCTATTCCAACAAGGAAATTTTCCTTCGGGAGTTGATCAGTAATGTTTCTGATGCCTTGGACAAGA
TTTGCTACGAGAGCCTGACAGACCCTTCCAAATTGGACAGTGGTAAAGAGCTGAAAATTGACATCATTCCTAACCCCCAG
GAGCGCACCCTGACTCTGGTAGACACAGGCTTTGGCATGACCAAAGCTGATCTTGTAAATAATTTGGGAACCATTGTCAC
GTCTGGTACTAAAGCATTTATGGAGGCTCTTCAGGCTGGTGCGGACATTTCCATGATTGGGCAATTTGGTGTTGGCTTCT
ATTCTGCCTACCTAGTGGCAGAGAAGGTGGTTGTGATCACAAAGCAAAATGATGATGGACAGTATGCCTGGGAGTCTTCT
GCTGGGGTTCCTTTACTGTACGTGCTGACCATGGTTAGCCCCTTGGGTGGGGTACCAAAGTGATTCTCCACCTTAAGGAA
GACCAGACAGAGTACTTAGAAGAAAGGCAGGTCAAAGAAGTGGTGAAGAAGCACTCACAGTTCATAGGTTATCCCATCAC
ACTCTATCTGGAGAAGGAAAGTGAGAAGGAAATCAGTGATGATGAGGCAGAGGAAGAGAAAGGTGAGAAAGACGAGGAAG
ATAAAGATGATGAGGAGAAGCCTAAGATTGAAGATGTGGGCTCAGATGAGGAGGATGATAGTGGCAAGGATAAGAAAAAG
AAGACAAAGAAGATCAAGGAGAAATGTATTGATCAGGAAGAACTGGACAAGACCAAGCCCATTTGGACCAGAAACCCTGA
TGGCATCACCCAGGAAGAATATGGAGAGTTTTGTAAGAGCCTTACAAATGACTGGGAAGTTCACTTGGCAGTGAAGCACT
TCTCTGTAGAAGGTCAGTTGGAATTCAGAGCATTGCTGTTCATCCCTCGTCGGGCTACTTTTGACCTCTTTGAGAACAAA
AAGAAAAAGAACAACATCAAACTCTATGTCTGCCATGTGTTCATCATGGACAGCTGTGATGAGTTAATACCAGAATATCT
CAACTTCATCTGTGGTGTGGTTGATTTTGAAGACCTTCCCCTGAACACCTCCCAAGAAATGCTCCAGCAGAGCAAAATCT
TGAAGGTCATTCGTAAAAACATTGTTAAGAAGTGCCTTGAGCTCTTCTCGGAGCTGGCAGAAGACAAGGAGAACTACAAG
AAATTCCATGAGGCGTTCTCTAAAAATCTAAAGCTTGGAATCCATGAGGACTCCACTAACTGGCGACACCTTTCTGAGCT
GCTGCGCTATCACATCTCCCAGTCTGGAGATGAGATGACTTCTCTCTCAGAATACGTGTCTCGCATGAAGGAGACCCAGA
AGTCCATCTATTACATCACT

Alignment

ORF - retro_ttru_292 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.65 %
• Parental protein coverage: 67.45 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MPEEVHHGEEEVETFAFQAEIAQLMSLIINTFYSNKEIFLRELISNASDALDKIRYESLTDPSKLDSGKE
          MPEEVHHGEEEVETFAFQAEIAQLMSLIINTFYSNKEIFLRELISN.SDALDKI.YESLTDPSKLDSGKE
Retrocopy MPEEVHHGEEEVETFAFQAEIAQLMSLIINTFYSNKEIFLRELISNVSDALDKICYESLTDPSKLDSGKE

Parental  LKIDIIPNPQERTLTLVDTGIGMTKADLVNNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYLVA
          LKIDIIPNPQERTLTLVDTG.GMTKADLVNNLGTI..SGTKAFMEALQAGADISMIGQFGVGFYSAYLVA
Retrocopy LKIDIIPNPQERTLTLVDTGFGMTKADLVNNLGTIVTSGTKAFMEALQAGADISMIGQFGVGFYSAYLVA

Parental  EKVVVITKHNDDEQYAWESSAG-GSFTVRADHGEPIGRGTKVILHLKEDQTEYLEERRVKEVVKKHSQFI
          EKVVVITK.NDD.QYAWESSAG.GSFTVRADHG.P.G.GTKVILHLKEDQTEYLEER.VKEVVKKHSQFI
Retrocopy EKVVVITKQNDDGQYAWESSAG<GSFTVRADHG*PLGWGTKVILHLKEDQTEYLEERQVKEVVKKHSQFI

Parental  GYPITLYLEKEREKEISDDEAEEEKGEKEEEDKDDEEKPKIEDVGSDEEDDSGKDKKKKTKKIKEKYIDQ
          GYPITLYLEKE.EKEISDDEAEEEKGEK.EEDKDDEEKPKIEDVGSDEEDDSGKDKKKKTKKIKEK.IDQ
Retrocopy GYPITLYLEKESEKEISDDEAEEEKGEKDEEDKDDEEKPKIEDVGSDEEDDSGKDKKKKTKKIKEKCIDQ

Parental  EELNKTKPIWTRNPDDITQEEYGEFYKSLTNDWEDHLAVKHFSVEGQLEFRALLFIPRRAPFDLFENKKK
          EEL.KTKPIWTRNPD.ITQEEYGEF.KSLTNDWE.HLAVKHFSVEGQLEFRALLFIPRRA.FDLFENKKK
Retrocopy EELDKTKPIWTRNPDGITQEEYGEFCKSLTNDWEVHLAVKHFSVEGQLEFRALLFIPRRATFDLFENKKK

Parental  KNNIKLYVRRVFIMDSCDELIPEYLNFIRGVVDSEDLPLNISREMLQQSKILKVIRKNIVKKCLELFSEL
          KNNIKLYV..VFIMDSCDELIPEYLNFI.GVVD.EDLPLN.S.EMLQQSKILKVIRKNIVKKCLELFSEL
Retrocopy KNNIKLYVCHVFIMDSCDELIPEYLNFICGVVDFEDLPLNTSQEMLQQSKILKVIRKNIVKKCLELFSEL

Parental  AEDKENYRKFYEAFSKNLKLGIHEDSTNRRRLSELLRYHTSQSGDEMTSLSEYVSRMKETQKSIYYIT
          AEDKENY.KF.EAFSKNLKLGIHEDSTN.R.LSELLRYH.SQSGDEMTSLSEYVSRMKETQKSIYYIT
Retrocopy AEDKENYKKFHEAFSKNLKLGIHEDSTNWRHLSELLRYHISQSGDEMTSLSEYVSRMKETQKSIYYIT

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_292 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_292 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 6 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000096384	2 retrocopies	retro_hsap_2912, retro_hsap_2958,
Macropus eugenii	ENSMEUG00000013735	1 retrocopy	retro_meug_1896,
Myotis lucifugus	ENSMLUG00000005239	2 retrocopies	retro_mluc_1604, retro_mluc_865,
Macaca mulatta	ENSMMUG00000022686	2 retrocopies	retro_mmul_1319, retro_mmul_1869,
Rattus norvegicus	ENSRNOG00000019834	6 retrocopies	retro_rnor_1561, retro_rnor_1562, retro_rnor_1787, retro_rnor_597, retro_rnor_598, retro_rnor_87,
Tursiops truncatus	ENSTTRG00000006924	1 retrocopy	retro_ttru_292 ,