RetrogeneDB ID: retro_ttru_1416

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_112770:740766..741280(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSTP1
• Ensembl ID: ENSTTRG00000003746
• Aliases: None
• Description: glutathione S-transferase pi 1 [Source:HGNC Symbol;Acc:4638]

Sequence

>retro_ttru_1416
CTGACGCCCCACACCACTGTCTACTTCCCTGTTCCAGGGTCTGCCAAGGCCACACACGTGCTGCGGGCTGGCCAGGGCCA
GAGCTGGAAGGAGGAGGCGGTGACCAAGGAGACCCAGCTGCAGTGCCCACTCAAGGCCTCCTAACTGTACGGGCAGCTCC
CCAAGTTCCAGAATGGAGACCTCACCCTGTACCAGTCCAATGCCATCCTGCGATACCTGGGCTGCTCCCTGAGGCTGTGT
GGGAAGGACCAGCGAGAGGCAGCCCTGGTGGACGCAGGCAACTACAGCGTGAAGGCCCTCCACTGCCGATACGCCACCCT
GATTTACACCAACCCCGAGGTGGGCAAGGAGGATGATGGGAAGGCACTGCCCGGGCACCTGAAGCCTTTTGAGCCCTGCT
GTCCCAGCACCAGAGAAGCCCGACTACATTATGGGCAAGCAGATCTCCTTCACAGGCTACAAGCTGCTGCACTGGCTGCG
GACTCACCAGGTCCTGGCCCTGCCGCGCTGCCTT

Alignment

ORF - retro_ttru_1416 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.94 %
• Parental protein coverage: 75.45 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MPPYTIVYFPVRGRCEAMRMLLADQDQSWKEEVVTMETWPS--LKASCLYGQLPKFQDGDLTLYQSNAIL
          ..P.T.VYFPV.G...A...L.A.Q.QSWKEE.VT.ET.....LKAS.LYGQLPKFQ.GDLTLYQSNAIL
Retrocopy LTPHTTVYFPVPGSAKATHVLRAGQGQSWKEEAVTKETQLQCPLKAS*LYGQLPKFQNGDLTLYQSNAIL

Parental  RHLGRSLGLYGKDQREAALVDVVNDGVEDLRCKYVTLIYTNYEAGKDDYVKALPQHLKPFE-TLLSQSQG
          R.LG.SL.L.GKDQREAALVD..N..V..L.C.Y.TLIYTN.E.GK.D..KALP.HLKPFE..LLSQ.Q.
Retrocopy RYLGCSLRLCGKDQREAALVDAGNYSVKALHCRYATLIYTNPEVGKEDDGKALPGHLKPFE<ALLSQHQR

Parental  GQA-FIVGNQISFADYNLLDLLRIHQVLA-PGCL
          .....I.G.QISF..Y.LL..LR.HQVLA.P.CL
Retrocopy SPT<YIMGKQISFTGYKLLHWLRTHQVLALPRCL

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_1416 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1416 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
Ailuropoda melanoleuca	ENSAMEG00000001020	3 retrocopies	retro_amel_1921, retro_amel_249, retro_amel_778,
Canis familiaris	ENSCAFG00000011349	4 retrocopies	retro_cfam_143, retro_cfam_2043, retro_cfam_46, retro_cfam_617,
Callithrix jacchus	ENSCJAG00000000879	1 retrocopy	retro_cjac_3321,
Macropus eugenii	ENSMEUG00000001519	2 retrocopies	retro_meug_1519, retro_meug_1762,
Mustela putorius furo	ENSMPUG00000004029	2 retrocopies	retro_mputfur_1215, retro_mputfur_1463,
Mus musculus	ENSMUSG00000038155	1 retrocopy	retro_mmus_521,
Oryctolagus cuniculus	ENSOCUG00000002230	1 retrocopy	retro_ocun_391,
Rattus norvegicus	ENSRNOG00000018237	4 retrocopies	retro_rnor_2140, retro_rnor_2567, retro_rnor_2842, retro_rnor_769,
Tursiops truncatus	ENSTTRG00000003746	1 retrocopy	retro_ttru_1416 ,
Tursiops truncatus	ENSTTRG00000009682	1 retrocopy	retro_ttru_1828,
Vicugna pacos	ENSVPAG00000008003	1 retrocopy	retro_vpac_73,