RetrogeneDB ID: retro_ttru_549

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2657:352799..353036(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDC42SE1
• Ensembl ID: ENSTTRG00000007000
• Aliases: None
• Description: CDC42 small effector 1 [Source:HGNC Symbol;Acc:17719]

Sequence

>retro_ttru_549
ATGAGTGAATTTTGGCACAAACTGGGCTGCTGCATGGTAGGGAACCCCCAGCTGAAGAAGAAGAGGAGGTGGCTTGGCTG
GGCCATGATTGGGGAACCAATGAATTTTGTCCACCTGACTCACATTGGCTCTAGGGAGATGGGGGTTGGAGATGGACTGG
CCATGACAGGTGCAGTTCAGGAGCAGATCAGATTCAAGGGAGAGCAAGACAGGCTGTGGAGCAATTCTAGGGGCTTG

Alignment

ORF - retro_ttru_549 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.75 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSEFWHKLGCCVVEKPQPKKKRRRIDRTMIGEPMNFVHLTHIGSGEMGAGDGLAMTGAVQEQMRSKGNRD
          MSEFWHKLGCC.V..PQ.KKKRR.....MIGEPMNFVHLTHIGS.EMG.GDGLAMTGAVQEQ.R.KG..D
Retrocopy MSEFWHKLGCCMVGNPQLKKKRRWLGWAMIGEPMNFVHLTHIGSREMGVGDGLAMTGAVQEQIRFKGEQD

Parental  RPWSNSRGL
          R.WSNSRGL
Retrocopy RLWSNSRGL

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_549 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_549 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000007370	1 retrocopy	retro_dord_322,
Echinops telfairi	ENSETEG00000019984	1 retrocopy	retro_etel_1111,
Mus musculus	ENSMUSG00000046722	1 retrocopy	retro_mmus_3360,
Tursiops truncatus	ENSTTRG00000007000	1 retrocopy	retro_ttru_549 ,