RetrogeneDB ID: retro_ttru_114

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1270:277397..277922(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COPZ1
• Ensembl ID: ENSTTRG00000001654
• Aliases: None
• Description: coatomer protein complex, subunit zeta 1 [Source:HGNC Symbol;Acc:2243]

Sequence

>retro_ttru_114
GAGGCGCTGATTTTGGAACCCTCCCTGTATACTGTCAAAGCCATCCTGATTCTGGACAATGATGGAGATCGACTTTTTGC
CAAGTACTATTACGACACCTACCCCAGTATCAAGGAGCAAAAGGCCTTTGAGAAGAACATTTTCAACAAGACCCACCGGA
CTGACAGTGAAATTGCCCTCTTGGAAGGCCTGACAGTGGTATACAAAAGCAGCATCGATCTCTATTTCTATGTGATCTGC
AGCTCTTGTGAAAATGAGCTGATGCTCATGGCTGTTCTGAATTGCCTCTTTGACTCCTTGAGCCAGACGCTGAGAAAAAA
TGTAGAAAAGCGAGCTCTGCTGGAGAACATGGAGGGGCTCTTCTTGGCTGTGGATGAAATCGTAGACGGAGGGGTGATCC
TGGAGAGCGATCCCCAGCAAGTGATACACTGGGTGGCATTAAGGGGAGAAGATGTACCCCTTACAGAGCAGACCGTGTCT
CAGGTGCTGCAGTCAGCCAAAGAACAGATCAAGTGGTCACTCCTT

Alignment

ORF - retro_ttru_114 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96. %
• Parental protein coverage: 98.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EALILEPSLYTVKAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFNKTHRTDSEIALLEGLTVVYKS
          EALILEPSLYTVKAILILDNDGDRLFAKYY.DTYPS.KEQKAFEKNIFNKTHRTDSEIALLEGLTVVYKS
Retrocopy EALILEPSLYTVKAILILDNDGDRLFAKYYYDTYPSIKEQKAFEKNIFNKTHRTDSEIALLEGLTVVYKS

Parental  SIDLYFYVIGSSYENELMLMAVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVDEIVDGGVILESDPQQ
          SIDLYFYVI.SS.ENELMLMAVLNCLFDSLSQ.LRKNVEKRALLENMEGLFLAVDEIVDGGVILESDPQQ
Retrocopy SIDLYFYVICSSCENELMLMAVLNCLFDSLSQTLRKNVEKRALLENMEGLFLAVDEIVDGGVILESDPQQ

Parental  VVHRVALRGEDVPLTEQTVSQVLQSAKEQIKWSLL
          V.H.VALRGEDVPLTEQTVSQVLQSAKEQIKWSLL
Retrocopy VIHWVALRGEDVPLTEQTVSQVLQSAKEQIKWSLL

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_114 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_114 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000005384	1 retrocopy	retro_btau_1500,
Canis familiaris	ENSCAFG00000006536	1 retrocopy	retro_cfam_30,
Callithrix jacchus	ENSCJAG00000018887	2 retrocopies	retro_cjac_1771, retro_cjac_3951,
Echinops telfairi	ENSETEG00000013499	1 retrocopy	retro_etel_1782,
Microcebus murinus	ENSMICG00000008401	1 retrocopy	retro_mmur_757,
Mus musculus	ENSMUSG00000060992	1 retrocopy	retro_mmus_2439,
Oryctolagus cuniculus	ENSOCUG00000013364	2 retrocopies	retro_ocun_1511, retro_ocun_797,
Rattus norvegicus	ENSRNOG00000036835	1 retrocopy	retro_rnor_2209,
Tupaia belangeri	ENSTBEG00000008730	1 retrocopy	retro_tbel_3749,
Tursiops truncatus	ENSTTRG00000001654	2 retrocopies	retro_ttru_114 , retro_ttru_856,