RetrogeneDB ID:

retro_ttru_294

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_1794:785995..786558(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CBX3
Ensembl ID:ENSTTRG00000000711
Aliases:None
Description:chromobox homolog 3 [Source:HGNC Symbol;Acc:1553]


Retrocopy-Parental alignment summary:






>retro_ttru_294
ATGGCCTCCAATAAAACTATATTGCAAAAAATGGGAAAGAAACAGAATGGAGAGACTAAAAAAGTCGAAGAGGCAGAACC
TGAAGAATTTGTGGTAGAAAAAGTACTGGACCATCATGTAGTGAATGGGAAGGTGGAGTATTTCCTGAAGTGGAAGGGAT
TTACAGATGCAGACAATACCTGGGAACCCGAAGAAAATTTAGATTGTCCAGAGCTAATTGAAGCATTTCTTAATTCTCAA
AAAGCTGGTCAAGAAAAAGATGGAACAGAAAGAAAATCTTTATCTGATATCACTGATATCATCAGTGAATCTGATGATAG
CAAATCAAAGAAAAAAAGAGATGCTGCTGACAAAACAAGAGGTTTAGCCAGAGGTCTCGACCCAGAGCGATAACTGGTGC
CACAGACAGCAGTGGAGAATTCATGTTTCTCACGAAATGGAAAGATTCAGATGAGGCGAACTTGGTGCTGGCAAAAGAGG
CAAATATGAAGTGTCCTCAGATTGTAATTGCTTCTTATGAAGAGAGACTAACTTAGCATTCTTGTCCAGAAGATGAAGCT
CAA

ORF - retro_ttru_294 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.66 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMASNKTTLQKMGKKQNGKSKKVEEAEPEEFVVEKVLDRRVVNGKVEYFLKWKGFTDADNTWEPEENLDCP
MASNKT.LQKMGKKQNG..KKVEEAEPEEFVVEKVLD..VVNGKVEYFLKWKGFTDADNTWEPEENLDCP
RetrocopyMASNKTILQKMGKKQNGETKKVEEAEPEEFVVEKVLDHHVVNGKVEYFLKWKGFTDADNTWEPEENLDCP
ParentalELIEAFLNSQKAGKEKDGTKRKSLSDSE---SDDSKSKKK--RDAADKPRGFARGLDPER-IIGATDSSG
ELIEAFLNSQKAG.EKDGT.RKSLSD.....S....SK.K..RDAADK.RG.ARGLDPER.I.GATDSSG
RetrocopyELIEAFLNSQKAGQEKDGTERKSLSDITDIISESDDSKSKKKRDAADKTRGLARGLDPER<ITGATDSSG
ParentalELMFLMKWKDSDEADLVLAKEANMRCPQIVIAFYEERLTWHSCPEDEAQ
E.MFL.KWKDSDEA.LVLAKEANM.CPQIVIA.YEERLT.HSCPEDEAQ
RetrocopyEFMFLTKWKDSDEANLVLAKEANMKCPQIVIASYEERLT*HSCPEDEAQ

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_294 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_294 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 14 parental genes, and 57 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG0000000289711 retrocopies
Callithrix jacchus ENSCJAG000000079528 retrocopies
Equus caballus ENSECAG000000127801 retrocopy
Loxodonta africana ENSLAFG000000069073 retrocopies
Mus musculus ENSMUSG000000298361 retrocopy
Otolemur garnettii ENSOGAG000000165831 retrocopy
Ochotona princeps ENSOPRG000000117139 retrocopies
Procavia capensis ENSPCAG000000049042 retrocopies
Rattus norvegicus ENSRNOG000000118142 retrocopies
Sarcophilus harrisii ENSSHAG000000179131 retrocopy
Sus scrofa ENSSSCG000000167114 retrocopies
Tarsius syrichta ENSTSYG000000081596 retrocopies
Tursiops truncatus ENSTTRG00000000711 7 retrocopies
Tursiops truncatus ENSTTRG000000045241 retrocopy



Copyright © RetrogeneDB 2014-2017