RetrogeneDB ID:

retro_ttru_898

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_543:133919..134321(+)
Located in intron of:ENSTTRG00000012261
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PFDN4
Ensembl ID:ENSTTRG00000003850
Aliases:None
Description:prefoldin subunit 4 [Source:HGNC Symbol;Acc:8868]


Retrocopy-Parental alignment summary:






>retro_ttru_898
ATGGCGGCCACCATGAAGAAGACAGCAGCAGAAGATGTCAATGTTACTTTTGCAAATCAACAAAAGACATACAGATTTGC
ATGGAATACAAGCAGAATCACAGAGCTGAAGGAAGAAACAGAAGTAAAAAAGAAACAACTCCCAAACTTAGAAGATGCTT
GTTAGGACATCATGCTTGCAGACGAGGACCGCTTAATGACACCTCATCAGACTGGTGATGTTTTCATTAGCCATTCTCAA
GAAGAAACATGAGAAATGCTAGAAGAAGCAAAGAAAAACTTGCAAGAAGAAACTGACGCCTTACCATCCAGAGTGGAATC
AACTCAGTGGGTGCTAGCAGATTTGAGAGTTCAGTTATATGAAAAATTGGGGAGCAACACAAACCCTGAAGCTGATGAAA
GC

ORF - retro_ttru_898 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.34 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAATMKKAAAEDVNVTFEDQQKINKFARNTSRITELKEEIEVKKKQLQNLEDACEDIMLADDDCLMIPYQ
MAATMKK.AAEDVNVTF..QQK...FA.NTSRITELKEE.EVKKKQL.NLEDAC.DIMLAD.D.LM.P.Q
RetrocopyMAATMKKTAAEDVNVTFANQQKTYRFAWNTSRITELKEETEVKKKQLPNLEDAC*DIMLADEDRLMTPHQ
ParentalIGDVFISHSQEETQEMLEEAKKNLQEEIDALESRVESIQRVLADLKVQLYAKFGSNINLEADES
.GDVFISHSQEET.EMLEEAKKNLQEE.DAL.SRVES.Q.VLADL.VQLY.K.GSN.N.EADES
RetrocopyTGDVFISHSQEET*EMLEEAKKNLQEETDALPSRVESTQWVLADLRVQLYEKLGSNTNPEADES

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Tursiops truncatus was not studied using RNA-Seq expression data.
Tursiops truncatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ttru_898 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_898 was not experimentally validated.

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 24 parental genes, and 52 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000131642 retrocopies
Bos taurus ENSBTAG000000088121 retrocopy
Canis familiaris ENSCAFG000000118561 retrocopy
Callithrix jacchus ENSCJAG000000026153 retrocopies
Cavia porcellus ENSCPOG000000124783 retrocopies
Erinaceus europaeus ENSEEUG000000027331 retrocopy
Felis catus ENSFCAG000000133552 retrocopies
Homo sapiens ENSG000001011322 retrocopies
Gorilla gorilla ENSGGOG000000273372 retrocopies
Myotis lucifugus ENSMLUG000000085823 retrocopies
Macaca mulatta ENSMMUG000000173002 retrocopies
Mustela putorius furoENSMPUG000000061732 retrocopies
Mus musculus ENSMUSG000000520331 retrocopy
Nomascus leucogenys ENSNLEG000000070232 retrocopies
Oryctolagus cuniculus ENSOCUG000000049405 retrocopies
Otolemur garnettii ENSOGAG000000163751 retrocopy
Ochotona princeps ENSOPRG000000053855 retrocopies
Oryzias latipes ENSORLG000000191791 retrocopy
Pongo abelii ENSPPYG000000258401 retrocopy
Pan troglodytes ENSPTRG000000136412 retrocopies
Sus scrofa ENSSSCG000000074872 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000282531 retrocopy
Tarsius syrichta ENSTSYG000000089744 retrocopies
Tursiops truncatus ENSTTRG00000003850 3 retrocopies
retro_ttru_103, retro_ttru_861, retro_ttru_898 ,



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