RetrogeneDB ID: retro_ttru_1494

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_114655:14946..15438(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRPS2
• Ensembl ID: ENSTTRG00000003226
• Aliases: None
• Description: phosphoribosyl pyrophosphate synthetase 2 [Source:HGNC Symbol;Acc:9465]

Sequence

>retro_ttru_1494
ATACACACTTCTCAGATACAGGTATTTTTAAAATGCTCCTGTGGAGAGTTTACATGCAGAACCCACAGTCTCCAGTGGAT
TTGAGAAACTACTGCACAGTGGAAGAAATGCATCATTGCATCGTCTCAGGCAAGTGGTTCCAAAAGTGTTACCTAACTGC
AGATGGATTCAATGCTGAAGTTACGTCGATTCACAAAGAGAGAAAGAAAGTCAATGGCAGGGGCAGGGCAGTTTTGTTTG
GTGATGTTTACAAGTGTGTGACTGTCCCCGTGAATGACAAGACTGACATTTGCAACTGTCATGCTGCTGCAGACAAGCTA
CTCCAGGCTGGAAGCAGGGAAGTTTAAGATATTCTTACTCATGCAGGCTTCCCTGGCCAGCTATTTTCAGAACCAATAAG
GCTGGTTTTGAGGCTGTGGTCACCAAAACGCAATTCTCAAAGAGGACAAAATCCAATAGTCCTCCAAGATTCAGGCCGTT
GCTATTTGAATG

Alignment

ORF - retro_ttru_1494 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.33 %
• Parental protein coverage: 51.71 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  LHASQIQGFF-DIPVDNLYAEPAV-LQWIRENITEWRNCIIVSPDAGGAKRVTSI-ADRLNVEFALIHKE
          .H.SQIQ.F....PV..L.AEP.V.LQWI.E....W..CII.S..A.G.K.VT...AD..N.E...IHKE
Retrocopy IHTSQIQVFL>NAPVESLHAEPTV<LQWI*ETTAQWKKCIIASSQASGSKSVT*L<ADGFNAEVTSIHKE

Parental  RKKANEVDRMVLVGDVKDRVAILVDDMADTCGTICH-AADKLLSAGATKVYAILTHGIFSG-PAISRINN
          RKK.N...R.VL.GDV...V...V.D..D.C...CH.AADKLL.AG...V..ILTH..F.G.PAI.R.N.
Retrocopy RKKVNGRGRAVLFGDVYKCVTVPVNDKTDICN--CHAAADKLLQAGSREV*DILTHAGFPG<PAIFRTNK

Parental  AAFEAVVV-TNTIPQEDKMKHCSKIQVIDISM
          A.FEAVV...N.I..EDK....SKIQ...I.M
Retrocopy AGFEAVVT<QNAILKEDKIQ*SSKIQAVAI*M

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_1494 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1494 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 14 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000011662	2 retrocopies	retro_cfam_1037, retro_cfam_1433,
Callithrix jacchus	ENSCJAG00000003885	1 retrocopy	retro_cjac_364,
Echinops telfairi	ENSETEG00000005166	2 retrocopies	retro_etel_1613, retro_etel_669,
Felis catus	ENSFCAG00000026323	1 retrocopy	retro_fcat_527,
Monodelphis domestica	ENSMODG00000017334	4 retrocopies	retro_mdom_1323, retro_mdom_1359, retro_mdom_258, retro_mdom_834,
Otolemur garnettii	ENSOGAG00000016087	1 retrocopy	retro_ogar_1440,
Procavia capensis	ENSPCAG00000001197	2 retrocopies	retro_pcap_219, retro_pcap_292,
Pongo abelii	ENSPPYG00000020125	1 retrocopy	retro_pabe_3431,
Pteropus vampyrus	ENSPVAG00000009452	1 retrocopy	retro_pvam_1224,
Sorex araneus	ENSSARG00000007710	1 retrocopy	retro_sara_18,
Ictidomys tridecemlineatus	ENSSTOG00000006056	1 retrocopy	retro_itri_1668,
Tupaia belangeri	ENSTBEG00000009917	1 retrocopy	retro_tbel_1245,
Tursiops truncatus	ENSTTRG00000003226	1 retrocopy	retro_ttru_1494 ,
Tursiops truncatus	ENSTTRG00000003835	2 retrocopies	retro_ttru_307, retro_ttru_485,