RetrogeneDB ID:

retro_ttru_423

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_2232:139339..139772(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:C1D
Ensembl ID:ENSTTRG00000013982
Aliases:None
Description:C1D nuclear receptor corepressor [Source:HGNC Symbol;Acc:29911]


Retrocopy-Parental alignment summary:






>retro_ttru_423
TTGATAATAATGGCAGATGAAGAAATTAATGAAGACTACCCAGGAGAAATTCATGAATATTTATCAACATTTGAGAATTC
CACTGGGGCTGTGGATGAGATGCTGAAGAGTATGATGTGTGTTTCTAGAAATGAGTTGTTGTAGAAGTTGGACCCACTTA
AACAAGCAAAAGTGGATTTAGTTTCTGCTTACACATTAAATTCAATGTTTTGGGTTTATGCGGCAACTCAGGGAGTCAAT
CCTAAGGAACATCCAGTAAAGCAGGAACTGGAAAGAATCAGAGTATACATGAACAGAGTCAAGGAAATAACAGACAAGAA
AAAGGCTGGCGACCTGGACAGAGGCGCGGCTTCAAGACGGCATTGGAATAAATGCCCTCTGGGAACCAAAACCTAAAAAT
GCACCCAAAGTTGTCAATAAAGGAAAAAGTAAA

ORF - retro_ttru_423 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.21 %
Parental protein coverage: 82.18 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalLNIMAGEEINEDYPVEIHEYLSTFENSIGAVDEMLKTMMSVSRNELLQKLDPLEQAKVDLVSAYTLNSMF
L.IMA.EEINEDYP.EIHEYLSTFENS.GAVDEMLK.MM.VSRNELL.KLDPL.QAKVDLVSAYTLNSMF
RetrocopyLIIMADEEINEDYPGEIHEYLSTFENSTGAVDEMLKSMMCVSRNELL*KLDPLKQAKVDLVSAYTLNSMF
ParentalWVYLATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKAGKLDR-AAASRFVK-NALWEPKPKNASKIAN
WVY.ATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKAG.LDR.AA..R....NALWEPKPKNA.K..N
RetrocopyWVYAATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKAGDLDRGAASRRHWN>NALWEPKPKNAPKVVN
ParentalKGKSK
KGKSK
RetrocopyKGKSK

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_423 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_423 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 25 parental genes, and 57 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000048591 retrocopy
Bos taurus ENSBTAG000000045671 retrocopy
Canis familiaris ENSCAFG000000300991 retrocopy
Choloepus hoffmanni ENSCHOG000000067193 retrocopies
Callithrix jacchus ENSCJAG000000065892 retrocopies
Cavia porcellus ENSCPOG000000067391 retrocopy
Echinops telfairi ENSETEG000000148575 retrocopies
Felis catus ENSFCAG000000289331 retrocopy
Homo sapiens ENSG000001972235 retrocopies
Gorilla gorilla ENSGGOG000000259823 retrocopies
Loxodonta africana ENSLAFG000000020831 retrocopy
Myotis lucifugus ENSMLUG000000107914 retrocopies
Macaca mulatta ENSMMUG000000172093 retrocopies
Monodelphis domestica ENSMODG000000035613 retrocopies
Nomascus leucogenys ENSNLEG000000099734 retrocopies
Oryctolagus cuniculus ENSOCUG000000097711 retrocopy
Ochotona princeps ENSOPRG000000095863 retrocopies
Pongo abelii ENSPPYG000000123541 retrocopy
Pan troglodytes ENSPTRG000000235583 retrocopies
Rattus norvegicus ENSRNOG000000059821 retrocopy
Sorex araneus ENSSARG000000039131 retrocopy
Sarcophilus harrisii ENSSHAG000000083521 retrocopy
Sus scrofa ENSSSCG000000083542 retrocopies
Tupaia belangeri ENSTBEG000000097974 retrocopies
Tursiops truncatus ENSTTRG00000013982 2 retrocopies
retro_ttru_1192, retro_ttru_423 ,



Copyright © RetrogeneDB 2014-2017