RetrogeneDB ID: retro_ttru_1859

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_95219:1157..1473(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CBX5
• Ensembl ID: ENSTTRG00000004524
• Aliases: None
• Description: chromobox homolog 5 [Source:HGNC Symbol;Acc:1555]

Sequence

>retro_ttru_1859
GATAAATCAGAGGGAGGCAAGCGCAAAGCTGATTCTGATTCGGAAGATAAGGGGGAGGAGAGTGAACTAAAGAAGAAAAG
AAGAGTCAGAAAAGGCATGAGGCTTTGCCCAGGGTTTGGAACCGCAGTGGATTATTGGAGCTACAGACTCCAGTGGAGAA
CTCATGTTTCTGATGAAATGGAAAAACTCTGAGGAGGTTGACCTGGTCCCTGCCAAGGAAGCCAATGTCAAGTGCCCACA
GGTTGTCATATCCTTCTATGAGGGAAGGCTGATGTGGCATTCCTACCCCTCGGAGGATGATGACAAAAAAGATGAC

Alignment

ORF - retro_ttru_1859 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.66 %
• Parental protein coverage: 54.97 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EKSEGNKRKSNFSNSADDIKSKKK-REQSNDIARGFERGLEPEKIIGATDSCGDLMFLMKWKDTDEADLV
          .KSEG.KRK...........S..K.R......A.GF..GLEP..IIGATDS.G.LMFLMKWK...E.DLV
Retrocopy DKSEGGKRKADSDSEDKGEESELK>RKEESEKA*GFAQGLEPQWIIGATDSSGELMFLMKWKNSEEVDLV

Parental  LAKEANVKCPQIVIAFYEERLTWHAYPEDAENKEKE
          .AKEANVKCPQ.VI.FYE.RL.WH.YP.....K...
Retrocopy PAKEANVKCPQVVISFYEGRLMWHSYPSEDDDKKDD

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_1859 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1859 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.

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018847	1 retrocopy	retro_cjac_2020,
Echinops telfairi	ENSETEG00000001220	1 retrocopy	retro_etel_678,
Homo sapiens	ENSG00000094916	1 retrocopy	retro_hsap_2811,
Gorilla gorilla	ENSGGOG00000000041	1 retrocopy	retro_ggor_1955,
Nomascus leucogenys	ENSNLEG00000017671	1 retrocopy	retro_nleu_428,
Pongo abelii	ENSPPYG00000004599	1 retrocopy	retro_pabe_2307,
Pan troglodytes	ENSPTRG00000005034	1 retrocopy	retro_ptro_1905,
Tursiops truncatus	ENSTTRG00000000711	7 retrocopies	retro_ttru_1238, retro_ttru_1247, retro_ttru_1851, retro_ttru_294, retro_ttru_52, retro_ttru_591, retro_ttru_644,
Tursiops truncatus	ENSTTRG00000004524	1 retrocopy	retro_ttru_1859 ,