RetrogeneDB ID:

retro_ttru_977

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_875:210466..211092(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PMM2
Ensembl ID:ENSTTRG00000014827
Aliases:None
Description:phosphomannomutase 2 [Source:HGNC Symbol;Acc:9115]


Retrocopy-Parental alignment summary:






>retro_ttru_977
TTGAGGGCTCCTGGCCCAGTGTTCTGTTTCCTTGGTGTGGACTGGACCCTGCTGCCCCCTCAGCAGAAAATTACTAAGGA
AATAAATGGCATTCTACAAAAATTGAGGCAGAAGATCAAAATCTGAGTCGTAGGCAGGTTGAATTTCAATAAAGTGCAGG
TGAAGCTGGGAAATGATATGGTTAAAAAAATATGATTATGTGTTTCCAGGAAATGGCTTCGTAGCATACAAAGTTGGGCA
ACTCTTATATAAACAGAATATTCAAGGTCACCTTGGTAAGGCCCTAATCCAAGATTTAATCAATGACTGTCTAAGCTACA
TTGTAGAAACCAAACTCCTGAAGAAGAAGGGTTGCTTTCATTGAAATTCTAAATGGGATGTGAATTCATCCTCTATTGAA
AGAAGCTGCAGCCCCAAAGAACACATGGAGTTCTATATGCATTATAAAGAAATAAAATATAAGACAAAAATGTGTAGCAG
ATCTGTGGAAAGCATTTGCAAATAAAGGCCTCACCTTTTCTGTAGGAGGCCAAATCAGTTTTGAGGTCTTTTGGGATGGA
TAGAGAAAGAGGTATTGCCTGGGACATGTGGAAAATCATGGTTATAAGACCATTTCTTTCTTTGGA

ORF - retro_ttru_977 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.15 %
Parental protein coverage: 84.55 %
Number of stop codons detected: 3
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMAAHGPALCLFDVDGTLTAPRQKITKDMDCFLQKLRQKIKVGVVGGSDFEKVQEQLGNDVVEK-YDYVFP
..A.GP..C...VD.TL..P.QKITK.....LQKLRQKIK..VVG...F.KVQ..LGND.V.K.YDYVFP
RetrocopyLRAPGPVFCFLGVDWTLLPPQQKITKEINGILQKLRQKIKI*VVGRLNFNKVQVKLGNDMVKK>YDYVFP
ParentalENGLVAYKDGKLLCKQNIQGHLGEALIQDLINYCLSYISKIKLPKKRG-TFIEFRNGM-LNVSPVGRSCS
.NG.VAYK.G.LL.KQNIQGHLG.ALIQDLIN.CLSYI...KL.KK.G..FIE..NGM..N.S...RSCS
RetrocopyGNGFVAYKVGQLLYKQNIQGHLGKALIQDLINDCLSYIVETKLLKKKG>AFIEILNGM<VNSSSIERSCS
ParentalQEERIEFYE-LDQKESIRQKFVEDLRREFAGKGLTFSIGGQISFDVFPDGWDKRYCLGHVEKDGYETIYF
..E..EFY.....K..IRQK.V.DL...FA.KGLTFS.GGQISF.VF.DG..KRYCLGHVE..GY.TI.F
RetrocopyPKEHMEFYM>IIKK*NIRQKCVADLWKAFANKGLTFSVGGQISFEVFWDG*RKRYCLGHVENHGYKTISF
ParentalFG
FG
RetrocopyFG

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_977 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_977 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 5 parental genes, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000014402 retrocopies
Monodelphis domestica ENSMODG000000057371 retrocopy
Otolemur garnettii ENSOGAG000000165601 retrocopy
Sus scrofa ENSSSCG000000212361 retrocopy
Tursiops truncatus ENSTTRG00000014827 2 retrocopies
retro_ttru_1894, retro_ttru_977 ,



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