RetrogeneDB ID: retro_ttru_1087

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_102342:61515..62030(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUDT21
• Ensembl ID: ENSTTRG00000013545
• Aliases: None
• Description: nudix (nucleoside diphosphate linked moiety X)-type motif 21 [Source:HGNC Symbol;Acc:13870]

Sequence

>retro_ttru_1087
AAGTACAGCTCTGTTGCAGCCAGATTTCAGCGCATGAGTGAGGAACTTGATAAAATTGGCAGGAGGAGGACTGTAGAAGG
GGTTTTGACTGTTCCTGAGCACCGGCTACCCCATGTGTTGCTGCTACAGCTGGGAACAACTTTCTTCAAATTACCTGGTG
GTAGCTTAACATAGGAGAAGATGAAGTCGACGGACAAAAATGCTTAATGACAGAGCTATTGGGTCGTCAAGATGGAGTCC
TGCAAGACTGGGACATTGATGACTGCAATGGTAACTGGTGGAGACCAAATTTTGAACCTTCTCAGTATCCATATATTCCT
GCACATATTACAAAACCTAAGGAACATAAGAAGTTGTTTTTGGTTCAACTTCAAGAGAAAGCCTTGTCTGCAGTCCTTAA
AAATTACGAGCTGGTAGCTGCACCACTGTTTGAACTGTACAACGATACACCCAGATATGGACCCATCATATCTAGTCTCC
CCCAGCTTTTGAGCAGGTTCAATTTTATACACAAC

Alignment

ORF - retro_ttru_1087 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.13 %
• Parental protein coverage: 75.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KDSSVAARFQRMREEFDKIGMRRTVEGVLIVHEHRLPHVLLLQLGTTFFKLPGGEL-NPGEDEVEGLKRL
          K.SSVAARFQRM.EE.DKIG.RRTVEGVL.V.EHRLPHVLLLQLGTTFFKLPGG.L.N.GEDEV.G.K.L
Retrocopy KYSSVAARFQRMSEELDKIGRRRTVEGVLTVPEHRLPHVLLLQLGTTFFKLPGGSL<NIGEDEVDGQKCL

Parental  MTEILGRQDGVLQDWVIDDCIGNWWRPNFEPPQYPYIPAHITKPKEHKKLFLVQLQEKALFAVPKNYKLV
          MTE.LGRQDGVLQDW.IDDC.GNWWRPNFEP.QYPYIPAHITKPKEHKKLFLVQLQEKAL.AV.KNY.LV
Retrocopy MTELLGRQDGVLQDWDIDDCNGNWWRPNFEPSQYPYIPAHITKPKEHKKLFLVQLQEKALSAVLKNYELV

Parental  AAPLFELYDNAPGYGPIISSLPQLLSRFNFIYN
          AAPLFELY...P.YGPIISSLPQLLSRFNFI.N
Retrocopy AAPLFELYNDTPRYGPIISSLPQLLSRFNFIHN

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_1087 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1087 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 12 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012724	3 retrocopies	retro_cjac_1121, retro_cjac_2211, retro_cjac_4100,
Cavia porcellus	ENSCPOG00000003705	1 retrocopy	retro_cpor_1054,
Felis catus	ENSFCAG00000008669	1 retrocopy	retro_fcat_1843,
Loxodonta africana	ENSLAFG00000028465	1 retrocopy	retro_lafr_610,
Mustela putorius furo	ENSMPUG00000003451	1 retrocopy	retro_mputfur_158,
Mus musculus	ENSMUSG00000031754	3 retrocopies	retro_mmus_1949, retro_mmus_1950, retro_mmus_2142,
Oryctolagus cuniculus	ENSOCUG00000017224	2 retrocopies	retro_ocun_154, retro_ocun_87,
Otolemur garnettii	ENSOGAG00000014888	2 retrocopies	retro_ogar_1450, retro_ogar_630,
Ochotona princeps	ENSOPRG00000006689	1 retrocopy	retro_opri_637,
Sarcophilus harrisii	ENSSHAG00000009651	1 retrocopy	retro_shar_469,
Sus scrofa	ENSSSCG00000029848	2 retrocopies	retro_sscr_117, retro_sscr_185,
Tursiops truncatus	ENSTTRG00000013545	1 retrocopy	retro_ttru_1087 ,