RetrogeneDB ID: retro_ttru_1552

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_116087:93441..94461(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCT6A
• Ensembl ID: ENSTTRG00000015158
• Aliases: None
• Description: chaperonin containing TCP1, subunit 6A (zeta 1) [Source:HGNC Symbol;Acc:1620]

Sequence

>retro_ttru_1552
ATGGCGGCCGTGAAGACCCTGAATCCCAAGGCTGAGGTGGCCCGAGCCCAGGCGGCGTTGGCGGTCAACATCAGCGCGGC
CCGGGGGCTGCAGGACGTGCTGAGGACCAACTTGGGGCCTAAGGGCACCATGAAGATGCTTGTTTCTGGTGCTGGAGACA
TCAAGCTCACTAAAGATGGAAATGTGCTGCTTCATGAAATGCAAATTCAACACCCAACAGCCTCCTTAATAGCCAAAGTA
GCAACAGCCCAGGATGACATAACTGGTGATGGTACCACTTCCAATGTCCTAATTATTGGAGAGCTCCTGAAGCAGGCGGA
TCTCTACATTTCTGAAGGTCTTCATCCCAGAATAATTACGGAAGGATTTGAAGCTGCAAAGGAAAAGGCACTTCAGTTTT
TGGAACAAGTCAAAGTAAGCAAAGAGATGGACAGAGAAACACTTATAGATGTGGCCAGAACATCTCTACGTACTAAAGTT
CATGCTGAACTTGCTGATGTCTTAACAGAGGCTGTAGTGGACTCCATTTTAGCCATTAAAAAACAAGATGAACCTATTGA
CCTCTTCATGGTTGAGATCATGGAGATGAAACATAAATCTGAAACCGATACAAGCTTGATCAGAGGTCTTGTTTTGGACC
ATGGGGCACGGCATCCTGATATGAAAAAGAGAGTAGAAGATGTGTACATCCTCACATGCAACGTGTCATTAGAATATGAA
AAAACAGAAGTGAATTCTGGCTTTTTTTACAAGAGTGCAGAGGAGAGAGAGAAACTAGTGAAAGCTGAAAGAAAATTCAT
TGAAGACAGAGTTAAAAAAATAATAGACCTGAAAAAGAAAGTCTGTGGTGATTCAGATAAAGGATTTGTTGTTATTAATC
AAAAGGGAATTGACCCCTTTTCCTTAGATGCTCTTGCAAAAGAAGGCATAGTAGCTCTGCGCAGAGCTAAAAGGAGAAAT
ATGGAAAGGCTGACTCTTGCTTGTGGTGGGGTAGCCCTAAATTCTCTTGAAGACCTAAAT

Alignment

ORF - retro_ttru_1552 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 100. %
• Parental protein coverage: 67.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAAVKTLNPKAEVARAQAALAVNISAARGLQDVLRTNLGPKGTMKMLVSGAGDIKLTKDGNVLLHEMQIQ
          MAAVKTLNPKAEVARAQAALAVNISAARGLQDVLRTNLGPKGTMKMLVSGAGDIKLTKDGNVLLHEMQIQ
Retrocopy MAAVKTLNPKAEVARAQAALAVNISAARGLQDVLRTNLGPKGTMKMLVSGAGDIKLTKDGNVLLHEMQIQ

Parental  HPTASLIAKVATAQDDITGDGTTSNVLIIGELLKQADLYISEGLHPRIITEGFEAAKEKALQFLEQVKVS
          HPTASLIAKVATAQDDITGDGTTSNVLIIGELLKQADLYISEGLHPRIITEGFEAAKEKALQFLEQVKVS
Retrocopy HPTASLIAKVATAQDDITGDGTTSNVLIIGELLKQADLYISEGLHPRIITEGFEAAKEKALQFLEQVKVS

Parental  KEMDRETLIDVARTSLRTKVHAELADVLTEAVVDSILAIKKQDEPIDLFMVEIMEMKHKSETDTSLIRGL
          KEMDRETLIDVARTSLRTKVHAELADVLTEAVVDSILAIKKQDEPIDLFMVEIMEMKHKSETDTSLIRGL
Retrocopy KEMDRETLIDVARTSLRTKVHAELADVLTEAVVDSILAIKKQDEPIDLFMVEIMEMKHKSETDTSLIRGL

Parental  VLDHGARHPDMKKRVEDVYILTCNVSLEYEKTEVNSGFFYKSAEEREKLVKAERKFIEDRVKKIIDLKKK
          VLDHGARHPDMKKRVEDVYILTCNVSLEYEKTEVNSGFFYKSAEEREKLVKAERKFIEDRVKKIIDLKKK
Retrocopy VLDHGARHPDMKKRVEDVYILTCNVSLEYEKTEVNSGFFYKSAEEREKLVKAERKFIEDRVKKIIDLKKK

Parental  VCGDSDKGFVVINQKGIDPFSLDALAKEGIVALRRAKRRNMERLTLACGGVALNSLEDLN
          VCGDSDKGFVVINQKGIDPFSLDALAKEGIVALRRAKRRNMERLTLACGGVALNSLEDLN
Retrocopy VCGDSDKGFVVINQKGIDPFSLDALAKEGIVALRRAKRRNMERLTLACGGVALNSLEDLN

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_1552 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1552 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 15 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000654	3 retrocopies	retro_chof_1183, retro_chof_1193, retro_chof_150,
Callithrix jacchus	ENSCJAG00000021279	2 retrocopies	retro_cjac_1320, retro_cjac_580,
Dipodomys ordii	ENSDORG00000001249	1 retrocopy	retro_dord_617,
Homo sapiens	ENSG00000146731	2 retrocopies	retro_hsap_2741, retro_hsap_3290,
Gorilla gorilla	ENSGGOG00000011439	1 retrocopy	retro_ggor_133,
Loxodonta africana	ENSLAFG00000012791	1 retrocopy	retro_lafr_808,
Macaca mulatta	ENSMMUG00000015272	1 retrocopy	retro_mmul_2582,
Monodelphis domestica	ENSMODG00000006565	1 retrocopy	retro_mdom_1330,
Nomascus leucogenys	ENSNLEG00000015664	1 retrocopy	retro_nleu_1355,
Oryctolagus cuniculus	ENSOCUG00000017674	1 retrocopy	retro_ocun_468,
Procavia capensis	ENSPCAG00000015532	1 retrocopy	retro_pcap_263,
Pongo abelii	ENSPPYG00000025820	1 retrocopy	retro_pabe_2719,
Pan troglodytes	ENSPTRG00000019206	2 retrocopies	retro_ptro_1854, retro_ptro_2225,
Rattus norvegicus	ENSRNOG00000000923	1 retrocopy	retro_rnor_2226,
Tursiops truncatus	ENSTTRG00000015158	1 retrocopy	retro_ttru_1552 ,