RetrogeneDB ID: retro_ttru_317

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1840:186658..186894(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C19orf53
• Ensembl ID: ENSTTRG00000010354
• Aliases: None
• Description: chromosome 19 open reading frame 53 [Source:HGNC Symbol;Acc:24991]

Sequence

>retro_ttru_317
AAGACAGTGGCAGCCTTGGAGTGGAATCGGGCCCGAGGAAGGGCCATTGGTTTATCACACCCAAGAAGGCAAGCATGGTG
CAGCAGCAAAAGCTTGAGTAAAACCTAGCGGTCAGGATCTGGAAGAACATCAAACATGATGTGATGAAAGCCAGCACCAG
CCTACCCGAGAACCTGGCACTGCTGAAGACCCTCACCAAGAAGGTGGCAGCCTTCTCCTCCACCAAGACACCTTCC

Alignment

ORF - retro_ttru_317 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.27 %
• Parental protein coverage: 83.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KTAATASERNR-GPRKGGLVIAPKKARIVQQQKLKKNLEVGIRKKIEHDVLMKASSSLPKKLALLKAPTK
          KT.A.A.E.NR.GPRKG...I.PKKA..VQQQKL..NL.V.I.K.I.HDV.MKAS.SLP..LALLK..T.
Retrocopy KTVA-ALEWNR<GPRKGHWFITPKKASMVQQQKLE*NLAVRIWKNIKHDV-MKASTSLPENLALLKTLT-

Parental  KKAAAPASTKTPS
          KK.AA..STKTPS
Retrocopy KKVAAFSSTKTPS

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_317 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_317 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 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002525	1 retrocopy	retro_btau_35,
Callithrix jacchus	ENSCJAG00000004427	3 retrocopies	retro_cjac_1003, retro_cjac_2634, retro_cjac_291,
Homo sapiens	ENSG00000104979	1 retrocopy	retro_hsap_628,
Gorilla gorilla	ENSGGOG00000027024	1 retrocopy	retro_ggor_550,
Monodelphis domestica	ENSMODG00000011876	2 retrocopies	retro_mdom_1436, retro_mdom_926,
Nomascus leucogenys	ENSNLEG00000013141	1 retrocopy	retro_nleu_452,
Otolemur garnettii	ENSOGAG00000007185	1 retrocopy	retro_ogar_640,
Procavia capensis	ENSPCAG00000014250	1 retrocopy	retro_pcap_26,
Pan troglodytes	ENSPTRG00000010565	1 retrocopy	retro_ptro_457,
Pteropus vampyrus	ENSPVAG00000006321	1 retrocopy	retro_pvam_1140,
Tursiops truncatus	ENSTTRG00000010354	1 retrocopy	retro_ttru_317 ,