RetrogeneDB ID: retro_ttru_581

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2746:110794..111846(-)
• Located in intron of: ENSTTRG00000006617

Retrocopy information

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

Parental gene information

• Parental gene symbol: STRAP
• Ensembl ID: ENSTTRG00000003466
• Aliases: None
• Description: serine/threonine kinase receptor associated protein [Source:HGNC Symbol;Acc:30796]

Sequence

>retro_ttru_581
ATGGCAATGAGGTAGACGCCGCTCACCTGCTCGGGCCACACGCGGCCCGTGGGGGATCTGGCCTTCAATGGCATCACGCC
TTACTGCTATTTCCTGATGGGCGCTTGCAAAGATGGTAAACCTATGCTACTCCAGGGAGATACAGGAGACTGCATTGGAA
CATTTTTGGGTCATAAGGGTGCTGTTTGGGGTGCAACACTAAATAAGGACGCCACCAAAGCAGCTACAGCAGCTGCAGAT
TTCACAGCCAAAAAGTGTGGGATGCTGTCTCAGGAGATGAATGGATGACCCTGGCCCATAAACACATCGTCAAGACTGTG
GATTTTACACAGGACAGTAATTACTTGTTAACCGGGGGACAGGATAAACTGTTACACATATACGACTTGAACAAACCTGA
AGCAGAGCCTAAGGAAATCAGTGGTCATACCTCTGGTATTAAAAAGGCTCTATGGTGCAGTGAGGATAAACAGATCCTTT
CAGCTGACGATAAAACTGTTCGCCTTTGGGATCATGCTACTATGACAGAAGTGAAATCTCTGAATTTTGATATGTCTGTT
AGCAGTATGGAATATATTCCTGAGGGAGAGATATTGGTAATAACTTATGGACGATCTATTGCTTTTCATAGTGCAGTAAG
TTTGGACCCAATTAAGTCTTTTGAAGCTCCTGCAACCAACAATTCTGCATCTCTTCATCCTGAGAAAGAATTTCTTGTTG
CAGGGGGTGAAGATTTTAAACTTTATAAGTATGATTATAATAGTGAAGAAGAATTAGGATCCTACAAAGGACACTCAGGT
CCCATTCTCTGTGTGAGGTTTAGTCCTGATGGAGAACTTTATGCTAGTGGTTCTGAGGATGGAACACTGAGACTATGGCA
GACTGTGGTAGGAAAAACATACGGCCTTTGGAAATGTGTGCTTCCTGAAGAAGATAGTGGCGAGCTGGCAAAGCCGAAGA
TCAGTTTTCCAGAGACAGCAGAAGAGGAGCTAGAAGAAATTGCTTCAGAGAATTCAGATTCCATCGATAGTTCAACTCCT
GAGGTTAAGGCC

Alignment

ORF - retro_ttru_581 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.5 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAMRQTPLTCSGHTRPVVDLAFSGITPYGYFLISACKDGKPMLRQGDTGDWIGTFL-GHKGAVWGATLNK
          MAMR.TPLTCSGHTRPV.DLAF.GITPY.YFL..ACKDGKPML.QGDTGD.IGTFL.G..G...G.....
Retrocopy MAMR*TPLTCSGHTRPVGDLAFNGITPYCYFLMGACKDGKPMLLQGDTGDCIGTFL<GS*GCCLGCNTK*

Parental  DATKAATAAADF-TAKVWDAVSGDELMTLAHKHIVKTVDFTQDSNCLLTGGQDKLLRIYDLNKPEADPKE
          ...........F...KVWDAVSGDE.MTLAHKHIVKTVDFTQDSN.LLTGGQDKLL.IYDLNKPEA.PKE
Retrocopy GRHQSSYSSCRFHSQKVWDAVSGDEWMTLAHKHIVKTVDFTQDSNYLLTGGQDKLLHIYDLNKPEAEPKE

Parental  ISGHTSGIKKALWCSEDKQILSADDKTVRLWDHATMTEVKSLNFNMSVSSMEYIPEGEILVITYGRSIAF
          ISGHTSGIKKALWCSEDKQILSADDKTVRLWDHATMTEVKSLNF.MSVSSMEYIPEGEILVITYGRSIAF
Retrocopy ISGHTSGIKKALWCSEDKQILSADDKTVRLWDHATMTEVKSLNFDMSVSSMEYIPEGEILVITYGRSIAF

Parental  HSAVSLDPIKSFEAPATINSASLHPEKEFLVAGGEDFKLYKYDYNSGEELESYKGHFGPIHCVRFSPDGE
          HSAVSLDPIKSFEAPAT.NSASLHPEKEFLVAGGEDFKLYKYDYNS.EEL.SYKGH.GPI.CVRFSPDGE
Retrocopy HSAVSLDPIKSFEAPATNNSASLHPEKEFLVAGGEDFKLYKYDYNSEEELGSYKGHSGPILCVRFSPDGE

Parental  LYASGSEDGTLRLWQTVVGKTYGLWKCVLPEEDSGELAKPKISFPETAEEELEEIASENSDSIYSSTPEV
          LYASGSEDGTLRLWQTVVGKTYGLWKCVLPEEDSGELAKPKISFPETAEEELEEIASENSDSI.SSTPEV
Retrocopy LYASGSEDGTLRLWQTVVGKTYGLWKCVLPEEDSGELAKPKISFPETAEEELEEIASENSDSIDSSTPEV

Parental  KA
          KA
Retrocopy KA

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_581 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_581 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 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007422	2 retrocopies	retro_chof_1098, retro_chof_1620,
Callithrix jacchus	ENSCJAG00000021593	1 retrocopy	retro_cjac_2503,
Homo sapiens	ENSG00000023734	2 retrocopies	retro_hsap_2092, retro_hsap_3723,
Gorilla gorilla	ENSGGOG00000009939	1 retrocopy	retro_ggor_1633,
Macaca mulatta	ENSMMUG00000013307	2 retrocopies	retro_mmul_1695, retro_mmul_985,
Mus musculus	ENSMUSG00000030224	1 retrocopy	retro_mmus_794,
Nomascus leucogenys	ENSNLEG00000004160	2 retrocopies	retro_nleu_1301, retro_nleu_1970,
Ochotona princeps	ENSOPRG00000015211	3 retrocopies	retro_opri_1029, retro_opri_217, retro_opri_541,
Pongo abelii	ENSPPYG00000004334	3 retrocopies	retro_pabe_2005, retro_pabe_3134, retro_pabe_3212,
Pan troglodytes	ENSPTRG00000004734	2 retrocopies	retro_ptro_1538, retro_ptro_2616,
Tursiops truncatus	ENSTTRG00000003466	2 retrocopies	retro_ttru_581 , retro_ttru_974,