RetrogeneDB ID:

retro_ttru_1402

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_112443:126872..127245(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PTP4A2
Ensembl ID:ENSTTRG00000016571
Aliases:None
Description:protein tyrosine phosphatase type IVA, member 2 [Source:HGNC Symbol;Acc:9635]


Retrocopy-Parental alignment summary:






>retro_ttru_1402
ATGAACCGTCCAGCCCCTGTGGAGATCTCCTATGAGAACATGCGTTTTCTGATAACCCACAACCCTACCAATGCTACCCT
CAACAAGTTCACAGAGGAATTTAAGAAGTATGGAGTGACAACTTTGGTTCAAGTTTGGTGATGCTACATATGACAAAGCA
CCAGTTGAAAAAGAAGGAATCCACGTTCTAGATTGGCCTTTTGATGATGGAGCACCACCCCCTAATCAGATAGTTGACGA
TTGGCTAAACCTACTAAAAACCAAATTTCATGAAAAGCCAGGTTGTTGTGTTGCAGTGCATTGTGTTGCAGGACTGGGAA
GGGCACCTGTGCTGGTCGCACTTGCTTTGATTGAATGAAGTACGAAGATGCAG

ORF - retro_ttru_1402 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.2 %
Parental protein coverage: 74.25 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMNRPAPVEISYENMRFLITHNPTNATLNKFTEELKKYGVTTLVRVC-DATYDKAPVEKEGIHVLDWPFDD
MNRPAPVEISYENMRFLITHNPTNATLNKFTEE.KKYGVTTLV.V..DATYDKAPVEKEGIHVLDWPFDD
RetrocopyMNRPAPVEISYENMRFLITHNPTNATLNKFTEEFKKYGVTTLVQVW>DATYDKAPVEKEGIHVLDWPFDD
ParentalGAPPPNQIVDDWLNLLKTKFREEPGCCVAVHCVAGLGRAPVLVALALIECGMKYE
GAPPPNQIVDDWLNLLKTKF.E.PGCCVAVHCVAGLGRAPVLVALALIE...K..
RetrocopyGAPPPNQIVDDWLNLLKTKFHEKPGCCVAVHCVAGLGRAPVLVALALIE*STKMQ

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_1402 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1402 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 30 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000391211 retrocopy
Callithrix jacchus ENSCJAG000000065392 retrocopies
Homo sapiens ENSG000001840074 retrocopies
Mus musculus ENSMUSG000000287882 retrocopies
Nomascus leucogenys ENSNLEG000000021373 retrocopies
Oryctolagus cuniculus ENSOCUG000000020601 retrocopy
Otolemur garnettii ENSOGAG000000296031 retrocopy
Pongo abelii ENSPPYG000000016063 retrocopies
Rattus norvegicus ENSRNOG000000500441 retrocopy
Sus scrofa ENSSSCG000000036051 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000027752 retrocopies
Tupaia belangeri ENSTBEG000000067901 retrocopy
Tursiops truncatus ENSTTRG000000041296 retrocopies
Tursiops truncatus ENSTTRG00000016571 2 retrocopies
retro_ttru_1396, retro_ttru_1402 ,



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