RetrogeneDB ID:

retro_ttru_1759

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_90628:127430..128022(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:COMMD2
Ensembl ID:ENSTTRG00000003450
Aliases:None
Description:COMM domain containing 2 [Source:HGNC Symbol;Acc:24993]


Retrocopy-Parental alignment summary:






>retro_ttru_1759
CTGGTCCTGTCAGAGGAGCACAAGGAGCACCTGGCCTTCCTGCCTCAAGTGGACAGCACGGTGGTCTCTGAGTTTGGGCG
AATTGTGGTGGAGTTCCCGAGGTGAGGCTCGAACCCCAAGATCTACGAAGGCGCTGCGAGAAAGCTCAGTGTGAGTAGTG
ACACTGTCCAACATGGTGTGGAAGAATTTAATATACCTCCTTCACTGAAAGTTCAAAGCTTTATGATTTCTGAACTGGAT
TTCCAAGACTGTTTTTGTTCTGTGATCCTCTGAAGAATTGAACAAACTGTTGCTTCAGCTTTTTCTGGACAACAGAAAGG
AGATCAGAACTATCCTGAGTGAATCAGCACCAGACCTCCCCAGTTACCACAGCCCTTGAATGGCGACTAGATGTACAGCT
TGCAAGCAGAAGCCTCAGGCAACAGATTAAACCAACAGTGACTATAAAGCTACACCTTAATAGAATGGAGGTCATAACAC
CCAAGTTCTGCAGACACACCCAGCCACCCTGCTCCATTTGGTTCAGCAATTGGAGCAAGCCTTGAAGGAGATGAAAACAG
ACCACCGTAGGAGAGCTGTGCGCAATATCAAG

ORF - retro_ttru_1759 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.5 %
Parental protein coverage: 98.99 %
Number of stop codons detected: 4
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalLNLSKEHKEHLALPAQVNSAVVLEFGRIAVKFLRRASNPKIYXXXXXKLSVSSDTVQHGVE-GLIHLLTE
L.LS.EHKEHLA...QV.S.VV.EFGRI.V.F.R..SNPKIY.....KLSVSSDTVQHGVE..LI.LL..
RetrocopyLVLSEEHKEHLAFLPQVDSTVVSEFGRIVVEFPR*GSNPKIYEGAARKLSVSSDTVQHGVE>NLIYLLH*
ParentalSSKLMISELDFQDSVFVLGFSEELNKLLLQLYLDNRKEIRTILSELAPDLPSYHS-LEWRLDVQLASRSL
..K...........VFVL..SEELNKLLLQL.LDNRKEIRTILSE.APDLPSYHS.LEWRLDVQLASRSL
RetrocopyKFKAL*FLNWISKTVFVL*SSEELNKLLLQLFLDNRKEIRTILSESAPDLPSYHS>LEWRLDVQLASRSL
ParentalRQQMKPSVTIKLHLNQ-NGDHNTQVLQTDPATLLHLVQQLEQALEEMKTNHCRRVVRNIK
RQQ.KP.VTIKLHLN..NG.HNTQVLQT.PATLLHLVQQLEQAL.EMKT.H.RR.VRNIK
RetrocopyRQQIKPTVTIKLHLNR<NGGHNTQVLQTHPATLLHLVQQLEQALKEMKTDHRRRAVRNIK

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_1759 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1759 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 6 parental genes, and 10 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000138091 retrocopy
Cavia porcellus ENSCPOG000000052732 retrocopies
Rattus norvegicus ENSRNOG000000433861 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000108884 retrocopies
Tupaia belangeri ENSTBEG000000035451 retrocopy
Tursiops truncatus ENSTTRG00000003450 1 retrocopy
retro_ttru_1759 ,



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