RetrogeneDB ID: retro_ttru_1165

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_106116:209106..209457(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NOL12
• Ensembl ID: ENSTTRG00000004799
• Aliases: None
• Description: nucleolar protein 12 [Source:HGNC Symbol;Acc:28585]

Sequence

>retro_ttru_1165
GAGGAGCGGCGGGTGTACCTGCCAGGCTTCCCCAAGCCTAAGAGAGAGCGGAAGACGGCAGCCCTGGAGGAGGTCAAGCA
ACGGAGGAGAGAAGCACTATCAGGACCACTGGAAGATGCAGACAACTGGACCAGCTAGTGACGGCAAAGACGGAGTCCCT
GCAGTACAAACACCCAACTACACGGCCACTGCAACTACCATGGAGCTACCTGGACTTCTTGGGGGTCAGGCTCCTCTGAC
TGTGCCACCTGAGCAAAGGGCCGGTCACGGGTCTGGGGAAGCGGCATCATCTATGTAAAACCCAAGCTGAGCCTTACCCA
GGAAGTCCAGGGACCCCTGCTATACCAGAGG

Alignment

ORF - retro_ttru_1165 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.41 %
• Parental protein coverage: 55.88 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  EEIKKRLKEEQKKLREERHREYLKMLAEREEA----LEEAD-ELDRLVTAKTEPVQYDHL-NHTVTVTTI
          EE....L....K..RE............R.EA....LE.AD..LD.LVTAKTE..QY.H..N.T.T.TT.
Retrocopy EERRVYLPGFPKPKRERKTAALEEVKQRRREALSGPLEDAD<QLDQLVTAKTESLQYKHP<NYTATATTM

Parental  -SNLDFSAARLLGL-PPPEQGVGHRSEEGASSAEKPTRALCRKSRDP-LLSQR
          .S.LDF...RLL.L..PPEQ..GH.S.E.ASS...P..AL.RKSRDP.LL.QR
Retrocopy >SYLDFLGVRLL*L<VPPEQRAGHGSGEAASSM*NPS*ALPRKSRDP<LLYQR

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_1165 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1165 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 9 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010139	1 retrocopy	retro_amel_672,
Callithrix jacchus	ENSCJAG00000012487	1 retrocopy	retro_cjac_538,
Equus caballus	ENSECAG00000011050	1 retrocopy	retro_ecab_126,
Felis catus	ENSFCAG00000004273	1 retrocopy	retro_fcat_757,
Oryctolagus cuniculus	ENSOCUG00000017013	1 retrocopy	retro_ocun_1698,
Otolemur garnettii	ENSOGAG00000008255	1 retrocopy	retro_ogar_2914,
Pteropus vampyrus	ENSPVAG00000010097	1 retrocopy	retro_pvam_1022,
Tupaia belangeri	ENSTBEG00000009745	1 retrocopy	retro_tbel_3215,
Tursiops truncatus	ENSTTRG00000004799	1 retrocopy	retro_ttru_1165 ,