RetrogeneDB ID: retro_ttru_772

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3366:212130..212635(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSD17B12
• Ensembl ID: ENSTTRG00000005103
• Aliases: None
• Description: hydroxysteroid (17-beta) dehydrogenase 12 [Source:HGNC Symbol;Acc:18646]

Sequence

>retro_ttru_772
CTGGAAATTAGTATTCTAATAAAGAATAAGGGAATGTCATATGAGTGCCTGAATAATTTTTAGATATCCCTGACTTGCAC
AACACCATCAAGAAAGTGATAAATAATAATAGTGTTTCTATTTATAAGGTGGCAAGATCAGTGCTGCCTGGCATGATAAA
AAGGTCTAAAGGGCAATTCTGAACATCTCTCTGCTAGTGACACGTACACAGTTTCACTAATTACTGTCTATTCTGCAGCC
AAGACATTTGTAGACTTCTCTTCTCGTGATTCCAGGCAGAGTATAGAAGCAAGGACATCTTTTTGCAGTGTGCCGTGCCT
TTCTTTACGGCCTCAAAATTGACTAAGATTCAAAAGCCAACTTTTAACCTCTCTTCAAAGGCATTTGTGAGTCTACAGTT
AGAACAGTAATCTTGCATTCCTGAATCAGCAGATACAAGATCCTCTTCATCATAGTGTCAATACTATCATCCTTGCCTTC
TTGGATTTCCATAAAACTTGCTATG

Alignment

ORF - retro_ttru_772 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.98 %
• Parental protein coverage: 54.81 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  LEIGVLVNNVGISYE-YPEYFLDVPDLDSTIKKLINVNVLSVCKMTWLVLPGMVERSKG-AILNIS-SAS
          LEI..L..N.G.SYE..PE.FLD.PDL..TIKK.IN.N..S..K....VLPGM..RSKG.AILNIS.SAS
Retrocopy LEISILIKNKGMSYE<VPE*FLDIPDLHNTIKKVINNNSVSIYKVARSVLPGMIKRSKG<AILNIS<SAS

Parental  GMYPVPLLTLYSATKAFVDFFSRCLHE-EYKSKGIFVQSVLPYFVATKLAKIRKPTLDKPSSETFV-KSA
          ..Y.V.L.T.YSA.K.FVDF.SR.....EY.SK.IF.Q...P.F.A.KL.KI.KPT....SS..FV..S.
Retrocopy DTYTVSLITVYSAAKTFVDFSSRDSRQ<EYRSKDIFLQCAVPFFTASKLTKIQKPTFNL-SSKAFV<EST

Parental  IKTVGVQSRTNGYLIHSLMASVISSLPSWLYFKLTM
          ..TV...S....Y.I.....S..SSLPSW...KL.M
Retrocopy VRTVILHS*ISRYKILFIIVSILSSLPSWISIKLAM

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_772 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_772 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 11 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011325	1 retrocopy	retro_cjac_2489,
Dipodomys ordii	ENSDORG00000004834	1 retrocopy	retro_dord_561,
Homo sapiens	ENSG00000149084	1 retrocopy	retro_hsap_3684,
Gorilla gorilla	ENSGGOG00000002003	1 retrocopy	retro_ggor_2491,
Nomascus leucogenys	ENSNLEG00000017959	1 retrocopy	retro_nleu_2273,
Oryctolagus cuniculus	ENSOCUG00000016351	1 retrocopy	retro_ocun_1335,
Otolemur garnettii	ENSOGAG00000009102	1 retrocopy	retro_ogar_3391,
Pongo abelii	ENSPPYG00000003343	1 retrocopy	retro_pabe_3021,
Pan troglodytes	ENSPTRG00000003522	1 retrocopy	retro_ptro_2499,
Ictidomys tridecemlineatus	ENSSTOG00000005473	1 retrocopy	retro_itri_1099,
Tursiops truncatus	ENSTTRG00000005103	1 retrocopy	retro_ttru_772 ,