RetrogeneDB ID:

retro_ttru_394

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_2118:133339..133813(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:EPCAM
Ensembl ID:ENSTTRG00000004235
Aliases:None
Description:epithelial cell adhesion molecule [Source:HGNC Symbol;Acc:11529]


Retrocopy-Parental alignment summary:






>retro_ttru_394
AGAGAAAAACCTTATGAGGATCAAAGTTTGTACACTGCACTCAAGGAGGTAATCATAAGTCGTTATCAACTGGATCCAAA
ATATATCACAGATGTTCTGTATGAGAATGATGTTCTCACTGTTGATCTGGTACAAAATTCTCAGAAAATTCAGAATGATG
TGGACATAGATGATGTGGCTTATTATTTTGAAAAAGATGTTAATGGTGAATCCTTGTTCCAGTCCAAAAGGATGGGCCTG
AAAGTAAATGGGGAACTACTGGATCTGGATCCTGGTTGAACTTCAATTTACTATGTTGATGAAAAACCACCTGAATTGTC
AGTGCAGGGTCTACAAGCTGGAATTATCTCTGTCGTTGTGGTTGTGGCGATAGCAGCTACTGCTGGAATCATGCTGGTGG
TTTCCAGAAAGAAAAGAACGGCAAAGTATGAGAAAGCTGAGATGAAGGACATGGGTGAGGTGCATTGGGAACTT

ORF - retro_ttru_394 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.75 %
Parental protein coverage: 54.05 %
Number of stop codons detected: 1
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalREKPYDVQSLQAALKEVITSRYQLDPKYITNILYENDVIVIDLVQNSSQKTQNDVDIADVAYYFEKDVKD
REKPY..QSL..ALKEVI.SRYQLDPKYIT..LYENDV...DLVQNS.QK.QNDVDI.DVAYYFEKDV..
RetrocopyREKPYEDQSLYTALKEVIISRYQLDPKYITDVLYENDVLTVDLVQNS-QKIQNDVDIDDVAYYFEKDVNG
ParentalESLFQSNKMDLRVNGELLDLDPSRTSIYYVDEKPPEFSMQGLQAGIIAVIVVVAVAITAGIAVLVVSRKK
ESLFQS..M.L.VNGELLDLDP..TSIYYVDEKPPE.S.QGLQAGII.V.VVVA.A.TAGI..LVVSRKK
RetrocopyESLFQSKRMGLKVNGELLDLDPG*TSIYYVDEKPPELSVQGLQAGIISVVVVVAIAATAGI-MLVVSRKK
ParentalRMAKYEKAEIKEMGEMHREL
R.AKYEKAE.K.MGE.H.EL
RetrocopyRTAKYEKAEMKDMGEVHWEL

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






RNA-Seq - click to see more details

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tursiops truncatus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ttru_394 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_394 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 17 parental genes, and 19 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000064741 retrocopy
retro_btau_66,
Choloepus hoffmanni ENSCHOG000000138341 retrocopy
retro_chof_258,
Callithrix jacchus ENSCJAG000000006241 retrocopy
retro_cjac_3006,
Dasypus novemcinctus ENSDNOG000000117991 retrocopy
retro_dnov_345,
Erinaceus europaeus ENSEEUG000000094621 retrocopy
retro_eeur_151,
Macropus eugenii ENSMEUG000000150742 retrocopies
retro_meug_1984, retro_meug_474,
Microcebus murinus ENSMICG000000001511 retrocopy
retro_mmur_739,
Macaca mulatta ENSMMUG000000123901 retrocopy
retro_mmul_34,
Monodelphis domestica ENSMODG000000010771 retrocopy
retro_mdom_104,
Mus musculus ENSMUSG000000453941 retrocopy
retro_mmus_185,
Ochotona princeps ENSOPRG000000043011 retrocopy
retro_opri_1225,
Pelodiscus sinensis ENSPSIG000000156801 retrocopy
retro_psin_22,
Pan troglodytes ENSPTRG000000119021 retrocopy
retro_ptro_92,
Rattus norvegicus ENSRNOG000000156671 retrocopy
retro_rnor_252,
Sus scrofa ENSSSCG000000084291 retrocopy
retro_sscr_69,
Ictidomys tridecemlineatus ENSSTOG000000086311 retrocopy
retro_itri_106,
Tursiops truncatus ENSTTRG00000004235 2 retrocopies
retro_ttru_21, retro_ttru_394 ,


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