RetrogeneDB ID: retro_ttru_921

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_665:55839..57023(-)
• Located in intron of: ENSTTRG00000006362

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC37A3
• Ensembl ID: ENSTTRG00000009525
• Aliases: None
• Description: solute carrier family 37, member 3 [Source:HGNC Symbol;Acc:20651]

Sequence

>retro_ttru_921
GGCCTTTTCATCAGCAGTATCGTCGGGGATCAGCTTAATTTGTGATGGGTTCTGTCTTTTGGCATGTGCTCCTCTGCATT
CGTGGTGTTTGTCTCTGGTACTCTCACAGAATGGCTGCATTTCTACAGCAAGGGGCTGTACTGCAGCCTGTGGATCGTGA
ATGGCCTGCTGCAGTCCACTGGTTGGCCCTGTGTGGTTACTGTTATGGGCAAATGGTTTGGGAAAGCTGGACGAGGAGTT
GTTTTTGGTCTCTGGAGTGCCTGTGCCTCAGTGGGCAATATTTTGGGACCGTGTCTAGCTTCTTCTGTTCTGCAGTATGG
TTATGAGTATGGCTTTGTGGTGACAGCGGCTGTGCAGTTTGCTGGTGGGATCATCATCTTCTTTAGACTCCTCGCGTCAC
CCAAAGAAATTGGTCTCCCAGGTATTGAGGCAGAAGATTTTGAAGAAGATTTGCACAGGCCATTAATTAATGGTGCTGAA
AATGAAGATGAAGCTGATCCTAATTACTCAATCCAAGAAGGCAAGTCTGTTACCCAAGTCAAGGTGATAAGCTTTTACCA
AGCTTGTTGCCTTCCCGGAGTTATAGCATATTCACTGGCCTGTGCCTGCTTGAAGTTAGTGAATTACTCCTTCTTCTTCT
GGTTGCCCTTTTATCTGAGTAATAACTTCGGATGGAAGGAGGCTGAAGTCGACAAGCTGTCCACTTGATACAATGTTGGA
GGAATTATAAGTGGAACTCTGCAAGGCTTCATCTCTTATGTGCTACAGAAGAGAGCCCCGGTGTTAGCTCTCAGTCTGCT
TCTGGCAGTCGGGTCCCTCGTTGGATGTAGTTATTCTCCAAACAATAAGTCTATCAATGCACTTCTGACGGCTGTCACAG
GATTTTTTATTGGTGGACCTTCTAATATGATTAGCTCTGCTATTTCTGAGGACCTCGGTCATCAAGAGCTGATCCAAGGG
AGCAGTGAGGCTTTGGCGATCATCACAGAATAGCTGATGGAACCGGGAGCACTGGAGCTGCGGTGAGCCAGTATTTAGCG
TCTTTGATCCAGGACAACCCAGGATGGATGTGGGTTTTCTACTTTTTCATTCTTATGACAATTTGCACAGTTCTATTTAT
TTCACCATTAATAGTGAGGGAAATATGCTATCTTATGCAAGGACGACAAGCTCGCATATTGAGT

Alignment

ORF - retro_ttru_921 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.15 %
• Parental protein coverage: 80.16 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GLFISGIVGDRLNLRWVLSFGMCSSALVVFVFGTLTEWLHFYNKGLYCSLWIVNGLLQSTGWPCVVAVMG
          GLFIS.IVGD.LNL.WVLSFGMCSSA.VVFV.GTLTEWLHFY.KGLYCSLWIVNGLLQSTGWPCVV.VMG
Retrocopy GLFISSIVGDQLNL*WVLSFGMCSSAFVVFVSGTLTEWLHFYSKGLYCSLWIVNGLLQSTGWPCVVTVMG

Parental  NWFGKAGRGVVFGLWSACASVGNILGACLASSVLQYGYEYAFLVTAAVQFAGGIIIFFGLLVSPEEIGLP
          .WFGKAGRGVVFGLWSACASVGNILG.CLASSVLQYGYEY.F.VTAAVQFAGGIIIFF.LL.SP.EIGLP
Retrocopy KWFGKAGRGVVFGLWSACASVGNILGPCLASSVLQYGYEYGFVVTAAVQFAGGIIIFFRLLASPKEIGLP

Parental  GIEAEENFEDDSHRPLISGAENEDEAEPNYSIQEDKTITQVKAISFYQACCLPGVIAYSLAYACLKLVNY
          GIEAE..FE.D.HRPLI.GAENEDEA.PNYSIQE.K..TQVK.ISFYQACCLPGVIAYSLA.ACLKLVNY
Retrocopy GIEAED-FEEDLHRPLINGAENEDEADPNYSIQEGKSVTQVKVISFYQACCLPGVIAYSLACACLKLVNY

Parental  SFFFWLPFYLSNNFGWKEAEADKLSIWYDVGGIIGGTLQGFISDVLQKRAPVLALSLLLAVGSLVGYSRS
          SFFFWLPFYLSNNFGWKEAE.DKLS..Y.VGGII.GTLQGFIS.VLQKRAPVLALSLLLAVGSLVG.S.S
Retrocopy SFFFWLPFYLSNNFGWKEAEVDKLST*YNVGGIISGTLQGFISYVLQKRAPVLALSLLLAVGSLVGCSYS

Parental  PNDKSINALLMAVTGFFIGGPSNMISSAISADLGRQELIQGSTEALATVT-GIVDGTGSIGAAVGQYLVS
          PN.KSINALL.AVTGFFIGGPSNMISSAIS.DLG.QELIQGS.EALA..T..I.DGTGS.GAAV.QYL.S
Retrocopy PNNKSINALLTAVTGFFIGGPSNMISSAISEDLGHQELIQGSSEALAIIT<RIADGTGSTGAAVSQYLAS

Parental  LIQDNLGWMWVFYFFILMTSCTILFISPLIVREICYLMQRREARILS
          LIQDN.GWMWVFYFFILMT.CT.LFISPLIVREICYLMQ.R.ARILS
Retrocopy LIQDNPGWMWVFYFFILMTICTVLFISPLIVREICYLMQGRQARILS

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_921 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_921 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012239	1 retrocopy	retro_btau_1471,
Canis familiaris	ENSCAFG00000003973	1 retrocopy	retro_cfam_2207,
Mus musculus	ENSMUSG00000029924	1 retrocopy	retro_mmus_3670,
Ictidomys tridecemlineatus	ENSSTOG00000010929	1 retrocopy	retro_itri_1795,
Tursiops truncatus	ENSTTRG00000009525	1 retrocopy	retro_ttru_921 ,