RetrogeneDB ID: retro_ttru_1173

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_106310:162664..163221(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AHSA2
• Ensembl ID: ENSTTRG00000013366
• Aliases: None
• Description: AHA1, activator of heat shock 90kDa protein ATPase homolog 2 (yeast) [Source:HGNC Symbol;Acc:20437]

Sequence

>retro_ttru_1173
ATGGCCAAGTGGGGCAGGGGACCTGCCCTGGATCATGGAGGAGTGGGAGGACAGACCAACATGAACGACTGGCAATGGAC
AGAGCAGGATGTCACCAGCTGGTCCAAGGGGAAGTTCCATGAGCTACTGGTGGTCACTGTTGTAGAGAATAGGCTGGCTG
CTGCAAGATCAGTAAGTTGAAGCAAGTGGAAGGTGAGGTTTTCTGCAGCAACTGGAAAGGAAAGCTTATTTCATTTTATG
ATTGAATATCAAACTGGGTTATAAAGGTATAATTAAAGAGTCTAGAGCAAAGCACAAGGGATTGATAGAAATATTCAACC
TTTCTGAAGAAAATGAAGTAGATGACATTGAGGCAAATGTGAGTAAAAATAAAGATGGGGACATTATGAAAACTGAAGGT
ACTGTCAAGAGCAGGGAAGCTTTTTGAGATTGCCTGAAGGCACGTAGGAAGGAATTTAAGATGGGAATGATTTACTAACA
AAGCTATGACAACTCAGGAGTTGCCACTTGTTAAAAGGAGACTGAGTGAGAATACCTTGCAGGCCTCATCTCCCATG

Alignment

ORF - retro_ttru_1173 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.83 %
• Parental protein coverage: 58.23 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  MAKW-GQG-DPRWIVEEREDG-TNVNNWHWTERDATSWSKGKLRELLVGIAVENE-AGRCEISELKQVEG
          MAKW.GQG.D..WI.EE.ED..TN.N.W.WTE.D.TSWSKGK..ELLV...VEN..AG.C.IS.LKQVEG
Retrocopy MAKW<GQG<DLPWIMEEWEDR<TNMNDWQWTEQDVTSWSKGKFHELLVVTVVENR<AGCCKISKLKQVEG

Parental  EASCSSRKGKLIFFYE-WNIKLGWKGIIKESGVKHKGLIEIPNLSEENEVDDAEVSSKKKGDGNILKDLM
          E..CS..KGKLI.FY...NIKLG.KGIIKES..KHKGLIEI.NLSEENEVDD.E....K..DG....D.M
Retrocopy EVFCSNWKGKLISFYD<LNIKLGYKGIIKESRAKHKGLIEIFNLSEENEVDDIEANVSKNKDG----DIM

Parental  KTAGTAKVREALGDYLKALKTEFTMGMI-LPTK-AMATQEL-TVKRKLSETTLQASSPV
          KT.GT.K.REA..D.LKA...EF.MGMI.L.TK.AM.TQEL..VKR.LSE.TLQASSP.
Retrocopy KTEGTVKSREAF*DCLKARRKEFKMGMI<LLTK<AMTTQELPLVKRRLSENTLQASSPM

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_1173 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1173 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000034768	1 retrocopy	retro_cjac_2904,
Equus caballus	ENSECAG00000005107	1 retrocopy	retro_ecab_217,
Gorilla gorilla	ENSGGOG00000014565	1 retrocopy	retro_ggor_237,
Pongo abelii	ENSPPYG00000012385	1 retrocopy	retro_pabe_471,
Pan troglodytes	ENSPTRG00000023268	1 retrocopy	retro_ptro_144,
Tursiops truncatus	ENSTTRG00000013366	1 retrocopy	retro_ttru_1173 ,