RetrogeneDB ID: retro_ttru_1644

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_82641:28973..29420(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF11
• Ensembl ID: ENSTTRG00000010211
• Aliases: None
• Description: ring finger protein 11 [Source:HGNC Symbol;Acc:10056]

Sequence

>retro_ttru_1644
ATGGGGAACTGCCTCAAATCCAGCATCTTGGATGACAGCTCTGTTCCTGAGTCTCCATCCCGCTGGGTGGGCCCAGGCGG
GAGGAGACGCTGGGATCAGGAACCACATCCGGAACAAGTTCCAAATCCCATCCATCTTCCAACACCCAGCTCGCTTCACC
AAGCAGCACAGCTGATGGAAGAGGAACAAGTGAGGTTAGCTCAAAGAATCAGCCTTAAAGAGCACCTGCCTCAAGGAGTG
TACAGAACAGATGGATTTGAAGAAAAGATCCAGGAGGAGTGTGTGATTTGTTGGTTGGAGTTTGTGCGTGGGGACTCCAT
CAGGTTTCTGCCCTGCGCACACTTCTATCACCTGAACTGCATCAATGAGTGGTTGACCAGGTCCTTCACCTGCCCCTACT
GTCGCAGGCCCATGGATGTCACACAGCCTTCATCCCAGGACTTTAAT

Alignment

ORF - retro_ttru_1644 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.13 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGNCLKSPTSDDISLLHESQSDRASFGEGTEPDQEPPPPYQEQVPVPVYHPTPSQTRLATQLTEEEQIRI
          MGNCLKS...DD.S...ES.S.....G.....DQEP.P...EQVP.P...PTPS....A.QL.EEEQ.R.
Retrocopy MGNCLKSSILDDSSV-PESPSRWVGPGGRRRWDQEPHP---EQVPNPIHLPTPSSLHQAAQLMEEEQVRL

Parental  AQRIGLIQHLPKGVYDPGRDGSEKKIRE-CVICMMDFVYGDPIRFLPCMHIYHLDCIDDWLMRSFTCPSC
          AQRI.L..HLP.GVY....DG.E.KI.E.CVIC...FV.GD.IRFLPC.H.YHL.CI..WL.RSFTCP.C
Retrocopy AQRISLKEHLPQGVYRT--DGFEEKIQEECVICWLEFVRGDSIRFLPCAHFYHLNCINEWLTRSFTCPYC

Parental  MEPVDAALLSSYETN
          ..P.D....SS...N
Retrocopy RRPMDVTQPSSQDFN

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_1644 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1644 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000006072	1 retrocopy	retro_etel_873,
Homo sapiens	ENSG00000123091	1 retrocopy	retro_hsap_3925,
Gorilla gorilla	ENSGGOG00000004919	1 retrocopy	retro_ggor_2641,
Myotis lucifugus	ENSMLUG00000004439	1 retrocopy	retro_mluc_145,
Otolemur garnettii	ENSOGAG00000011682	1 retrocopy	retro_ogar_2003,
Pongo abelii	ENSPPYG00000001361	1 retrocopy	retro_pabe_3241,
Pan troglodytes	ENSPTRG00000041089	1 retrocopy	retro_ptro_2669,
Ictidomys tridecemlineatus	ENSSTOG00000020072	4 retrocopies	retro_itri_1747, retro_itri_1886, retro_itri_633, retro_itri_974,
Tursiops truncatus	ENSTTRG00000010211	1 retrocopy	retro_ttru_1644 ,