RetrogeneDB ID: retro_ttru_1828

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_92999:45904..46318(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSTM3
• Ensembl ID: ENSTTRG00000009682
• Aliases: None
• Description: glutathione S-transferase mu 3 (brain) [Source:HGNC Symbol;Acc:4635]

Sequence

>retro_ttru_1828
GGTTACTGGAACATTCACAGGCTGGCTCATACCATCTGCCTGCTTCTGGAATACAAAGACTTAAACTATGAGGGAAAGAA
GTACATGGCGGGGGATGCTCCTGACCATGACAGAAGCCAGTGACTGAATGAGAAATTGAAGCCAGGCCTGGACTTTCCCA
ATCTGCCCTATTTAATTGATGATGTTTTTGAGATCACCCAGAGCAATGTCATCTTTTGCTACATTGCTTACAAGTACAAC
CTATGAGGGGAGACAGAAGAGAAGATTCATGTGGACATTTTTGAGAACTAGGTTATAGACACCTCCAATTAGCTGGTCAG
TGTCTGCTACAGCCCTGACTTTGAGAAACTGAAGCCTAAGTACTTGGAGGATCTCTGTGAAAAGATGAAGCTCTTCTCTA
CTTTCTGGGGAAGA

Alignment

ORF - retro_ttru_1828 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.68 %
• Parental protein coverage: 62.05 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GYWDIRGLAHAIRMLLEFTETAYEEKRYTCGEAPDYDKSQWLDMKFKLDLDFPNLPYLMDGKNKITQSNA
          GYW.I..LAH.I..LLE.....YE.K.Y..G.APD.D.SQ.L..K.K..LDFPNLPYL.D....ITQSN.
Retrocopy GYWNIHRLAHTICLLLEYKDLNYEGKKYMAGDAPDHDRSQ*LNEKLKPGLDFPNLPYLIDDVFEITQSNV

Parental  ILRYIARKHNMCGETEEEKIRVDMMENQIMDFRMQLIQLCYNADHEKLKPQYLEQLPGQLKQFSLFLGK
          I..YIA.K.N..GET.EEKI.VD..EN...D....L...CY..D.EKLKP.YLE.L....K.FS.F.G.
Retrocopy IFCYIAYKYNL*GET-EEKIHVDIFEN*VIDTSN*LVSVCYSPDFEKLKPKYLEDLCEKMKLFSTFWGR

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_1828 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1828 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 16 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005380	2 retrocopies	retro_chof_1850, retro_chof_1989,
Callithrix jacchus	ENSCJAG00000003168	1 retrocopy	retro_cjac_4,
Erinaceus europaeus	ENSEEUG00000014211	1 retrocopy	retro_eeur_112,
Echinops telfairi	ENSETEG00000005817	2 retrocopies	retro_etel_1074, retro_etel_1910,
Homo sapiens	ENSG00000134202	1 retrocopy	retro_hsap_2419,
Microcebus murinus	ENSMICG00000005185	1 retrocopy	retro_mmur_1571,
Macaca mulatta	ENSMMUG00000008029	2 retrocopies	retro_mmul_610, retro_mmul_941,
Monodelphis domestica	ENSMODG00000001899	1 retrocopy	retro_mdom_331,
Mus musculus	ENSMUSG00000004032	2 retrocopies	retro_mmus_491, retro_mmus_547,
Nomascus leucogenys	ENSNLEG00000003302	1 retrocopy	retro_nleu_1895,
Pan troglodytes	ENSPTRG00000001063	2 retrocopies	retro_ptro_1393, retro_ptro_1709,
Rattus norvegicus	ENSRNOG00000047034	1 retrocopy	retro_rnor_963,
Sus scrofa	ENSSSCG00000006821	2 retrocopies	retro_sscr_10, retro_sscr_855,
Tarsius syrichta	ENSTSYG00000006736	1 retrocopy	retro_tsyr_145,
Tursiops truncatus	ENSTTRG00000003746	1 retrocopy	retro_ttru_1416,
Tursiops truncatus	ENSTTRG00000009682	1 retrocopy	retro_ttru_1828 ,