RetrogeneDB ID:

retro_ttru_16

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_89389:84746..86066(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSTTRG00000005668
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:PCED1A
Ensembl ID:ENSTTRG00000003464
Aliases:None
Description:PC-esterase domain containing 1A [Source:HGNC Symbol;Acc:16212]


Retrocopy-Parental alignment summary:






>retro_ttru_16
ATGGTCCACCTGCTCGCCTCCGAAGTACGGCAGCTACTTCACAACAAGTTCGTGGTCATCCTGGGGGACTCGGTCCAGAG
GGCCGTGTACAAGGACCTGGTGCTCCTGCTGCAGAAGGACTGCCTGCTCACACTCAGCCAGCTCAAGGCCAAGGGAGAGT
ACAGCTTCGAGCAGGACGAGCTGGTGCAGGGGGGCAAGCAGGGCCGCATGCATAACGGCACCCACTACCGCGAGGTGCGC
CAGTTCTGCTCCGGCCAGCACCTGGTGCGCTTCTACTTCCTGACGCGCGTGTACTCCGACTACCTGGAAGCCATCCTGGA
GGAGCTGCGTTCGGGCGAGCACGACCCGGACCTGGTCATCATGAACTCCTGCCTCTGGGACCTCACCAGGTACGGGGAGG
ACTCCTGGCCGAACTACCTGCAGAACCTGGAGAGCCTGTTTGGGCGCCTGCGCCAGGTGCTGCCCGAGTCGTGCCTCCTG
GTTTGGAACACGGCCATGCCCGTGGGCAACAACATCAATAGCGGCTTCCTCCCGCCCGAGCTCCGACCCGCGGCCTCCAC
ACTGAAAACCAACGTGATTGAGGCCAACTTCTACAGCTCTGTCGAGGCCCAAAAGCACGGCTTCGATGTGCTGGACTTGC
ACTTCCACTTCCGCCGCCACACAGGGAAGTACCTGCAGCCCGACGGGGTGCACTGGAACGAGCGAGCGCACCGGCATCTC
TCCCAGCTTCTGCTGGCCCACGTGGCCGACGCCTGGGGGGTGGAGCTGCCCCAGCGTGACCCAGTGAGCAAGTGCATCAA
GGATGGCCCCGCGAGGGGAGGACCTGGCCGGAGACTTGAGAGGCAGCTCCCGGCCTGCAGAGATCAACCGGCCTTCCCTC
CTCCACACCGACCCTTGCCTCTGCCTGGGTGCTGCCCCCTGCTCCCCACGCCATCTCCCCGCCCACCCCAGTTCCCACTG
CTGCCCCCAAAACCCCGTCCCATCCCCCTTCAGCAGGTGACACCCCCGTTCCTTGTCTGTCCCCAAGATGCCGATTTTTC
TTCAGAGCGTCCTTTCCAATCGGATCAGTTCTCCTTGAACCATTTCCATTCAGATATTCTCCCATCTACCCAGACAGAAT
TTGCCTTCGATGGTGACTTTATGTTTAGTCCCCAGCCGCCTAGGCCCCCCTTCCCCCAACCCTGTTATCAGCAGCGGGCC
CCTGTGGTCCATAGGGGTTTTCCCCGGTATTGTCCCCGTGGCCCCTACTTGCCCTGGAGAGGGCGGCCCAGAAATTCCAA
GAGAAGGGCCCCAGCCTATAGAGAGCCAAGGCCTCAATAG

ORF - retro_ttru_16 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.31 %
Parental protein coverage: 74.12 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMVQFQASEVQQLLHNKFVVILGDSIQRAVYKDLVLLLQKDSLLTAAQLKAKGELSFEQDQLMAGGQLGEL
MV...ASEV.QLLHNKFVVILGDS.QRAVYKDLVLLLQKD.LLT..QLKAKGE.SFEQD.L..GG..G..
RetrocopyMVHLLASEVRQLLHNKFVVILGDSVQRAVYKDLVLLLQKDCLLTLSQLKAKGEYSFEQDELVQGGKQGRM
ParentalHNGTQYREVRQFCSGSGHHLVRFYFLTRVYSEYLEGILEELTYGPA-PDLVIINSCLWDLSRYGRCSMES
HNGT.YREVRQFCSG...HLVRFYFLTRVYS.YLE.ILEEL..G...PDLVI.NSCLWDL.RYG..S...
RetrocopyHNGTHYREVRQFCSGQ--HLVRFYFLTRVYSDYLEAILEELRSGEHDPDLVIMNSCLWDLTRYGEDSWPN
ParentalYRENLERVFMRMDQVLPDSCLLVWNMAMPLGERVTGGFLLPELQPLAGSLRRDVVEGNFYSATLAGDHCF
Y..NLE..F.R..QVLP.SCLLVWN.AMP.G.....GFL.PEL.P.A..L...V.E.NFYS...A..H.F
RetrocopyYLQNLESLFGRLRQVLPESCLLVWNTAMPVGNNINSGFLPPELRPAASTLKTNVIEANFYSSVEAQKHGF
ParentalDVLDLHFHFR-HAVQHRHRDGVHWDQHAHRHLSHLLLTHVADAWGVELPKRDYPHDPWIEDWPEPDHLFQ
DVLDLHFHFR.H.......DGVHW...AHRHLS.LLL.HVADAWGVELP.RD.P....I.D.P.......
RetrocopyDVLDLHFHFRRHTGKYLQPDGVHWNERAHRHLSQLLLAHVADAWGVELPQRD-PVSKCIKDGPARGGPGR
ParentalGSQGQTPAFREQLALPPP-SPLPLPMHFPYPLPQPSP-PPLFPLLPQDPPFFPGQPFPP
....Q.PA.R.Q.A.PPP..PLPLP...P..LP.PSP.PP.FPLLP..P...P.Q...P
RetrocopyRLERQLPACRDQPAFPPPHRPLPLPGCCPL-LPTPSPRPPQFPLLPPKPRPIPLQQVTP

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_16 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_16 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 16 parental genes, and 24 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000038631 retrocopy
retro_btau_182,
Cavia porcellus ENSCPOG000000254752 retrocopies
retro_cpor_343, retro_cpor_79,
Equus caballus ENSECAG000000164971 retrocopy
retro_ecab_87,
Felis catus ENSFCAG000000028861 retrocopy
retro_fcat_18,
Homo sapiens ENSG000001326352 retrocopies
retro_hsap_2207, retro_hsap_82,
Microcebus murinus ENSMICG000000165782 retrocopies
retro_mmur_163, retro_mmur_278,
Myotis lucifugus ENSMLUG000000286622 retrocopies
retro_mluc_222, retro_mluc_647,
Macaca mulatta ENSMMUG000000052002 retrocopies
retro_mmul_333, retro_mmul_341,
Mus musculus ENSMUSG000000377732 retrocopies
retro_mmus_1001, retro_mmus_332,
Otolemur garnettii ENSOGAG000000047011 retrocopy
retro_ogar_81,
Pongo abelii ENSPPYG000000108332 retrocopies
retro_pabe_192, retro_pabe_2080,
Pan troglodytes ENSPTRG000000131851 retrocopy
retro_ptro_105,
Pteropus vampyrus ENSPVAG000000068341 retrocopy
retro_pvam_9,
Sus scrofa ENSSSCG000000071681 retrocopy
retro_sscr_23,
Ictidomys tridecemlineatus ENSSTOG000000163562 retrocopies
retro_itri_1190, retro_itri_783,
Tursiops truncatus ENSTTRG00000003464 1 retrocopy
retro_ttru_16 ,


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