RetrogeneDB ID:

retro_ttru_1459

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_113897:64426..65257(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSTTRG00000014225
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ttru_1459
GGGGAGGAGAGCCATGATTCAAAGGAACCAGAACAGTTGAGAAAACTGTTTCTTGGTGGTCTGAGCTTTGAACCTACAGA
TGATAGCTTAAGAGAACATTGTGAGAAATGGGGCACACTTACAGTTTGTGTGGTGATGAGAGACCCCCAAATAAAACGTT
CCAGGGGCTTTGGTTTTGTGACTTACTCTTGTGTTGAAGAGGTGGATGCAGCAATGTGTGCTCGACCACACAAGGTTGAT
GGGAGTGTAGTGGAACCAAAGAGAGCTGTTTCTAGAGAGGATTCTGTAAAGCCTGGTGCCCATCTAACAGTGAAGAAAAT
TTTTGTTGGTGGTATTAAAGAAGATACAGAAGAATATAATTTGAGAGACTACTTTGAAAAGTATGGCAAGATTGAAACCA
TAGAGGTTATGGAAGACAGGCAGAGTGGAAAAAAGAGAGGATTTGCTTTTGTAACTTTTGATGATCATGATACAGGTGAT
AAAATTGTTGTTCAAAAATACCACACTCTTAATGGGCATAAGTGTAAAGTGAAAAAGGCCCTTTCTAAACAAGAAATGCA
ATCTGCTGGATCACAAAGAGGTCGTGGAGGTGTATCTGGCAACTTTATGGGTCGTGGAGGAAACTTTGGAGGTGGTGGAG
GTAACTTGGGCCGTGGTGGAAACTTTGGTGGAAGAGGAGGCTATGGTGGGGGAGGTGGTGGCAGCAGAGGTAGTTATGGA
GGAGGTGATGGTGGATATAATGGATTTGGAGGCAATGGTGGTAACTATGGCGGTGGTCCTGGTTACAGTAGTAGAGGAGG
CTGTGGTGGTGGTGGACCAGGATATGGAAAC

ORF - retro_ttru_1459 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.22 %
Parental protein coverage: 73.09 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGEEGHDPKEPEQLRKLFIGGLSFETTDDSLREHFEKWGTLTDCVVMRDPQTKRSRGFGFVTYSCVEEVDA
GEE.HD.KEPEQLRKLF.GGLSFE.TDDSLREH.EKWGTLT.CVVMRDPQ.KRSRGFGFVTYSCVEEVDA
RetrocopyGEESHDSKEPEQLRKLFLGGLSFEPTDDSLREHCEKWGTLTVCVVMRDPQIKRSRGFGFVTYSCVEEVDA
ParentalAMCARPHKVDGRVVEPKRAVSREDSVKPGAHLTVKKIFVGGIKEDTEEYNLRDYFEKYGKIETIEVMEDR
AMCARPHKVDG.VVEPKRAVSREDSVKPGAHLTVKKIFVGGIKEDTEEYNLRDYFEKYGKIETIEVMEDR
RetrocopyAMCARPHKVDGSVVEPKRAVSREDSVKPGAHLTVKKIFVGGIKEDTEEYNLRDYFEKYGKIETIEVMEDR
ParentalQSGKKRGFAFVTFDDHDTVDKIVVQKYHTINGHNCEVKKALSKQEMQSAGSQRGRGGGSGNFMGRGGNFG
QSGKKRGFAFVTFDDHDT.DKIVVQKYHT.NGH.C.VKKALSKQEMQSAGSQRGRGG.SGNFMGRGGNFG
RetrocopyQSGKKRGFAFVTFDDHDTGDKIVVQKYHTLNGHKCKVKKALSKQEMQSAGSQRGRGGVSGNFMGRGGNFG
ParentalGGGGNFGRGGNFGGRGGYGGGGGGSRGSYGGGDGGYNGFGGDGGNYGGGPGYSSRGGYGGGGPGYGN
GGGGN.GRGGNFGGRGGYGGGGGGSRGSYGGGDGGYNGFGG.GGNYGGGPGYSSRGG.GGGGPGYGN
RetrocopyGGGGNLGRGGNFGGRGGYGGGGGGSRGSYGGGDGGYNGFGGNGGNYGGGPGYSSRGGCGGGGPGYGN

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_1459 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_1459 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 19 parental genes, and 76 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000119204 retrocopies
retro_amel_1407, retro_amel_557, retro_amel_715, retro_amel_765,
Cavia porcellus ENSCPOG000000042513 retrocopies
retro_cpor_1516, retro_cpor_1543, retro_cpor_65,
Ficedula albicollis ENSFALG000000032151 retrocopy
retro_falb_15,
Gallus gallus ENSGALG000000092501 retrocopy
retro_ggal_10,
Monodelphis domestica ENSMODG000000198031 retrocopy
retro_mdom_1590,
Mustela putorius furoENSMPUG000000141036 retrocopies
retro_mputfur_1141, retro_mputfur_1336, retro_mputfur_1545, retro_mputfur_603, retro_mputfur_674, retro_mputfur_779,
Oryctolagus cuniculus ENSOCUG000000027432 retrocopies
retro_ocun_994, retro_ocun_995,
Pelodiscus sinensis ENSPSIG000000030111 retrocopy
retro_psin_16,
Pan troglodytes ENSPTRG000000126765 retrocopies
retro_ptro_1059, retro_ptro_2430, retro_ptro_2966, retro_ptro_683, retro_ptro_872,
Rattus norvegicus ENSRNOG0000000155611 retrocopies
retro_rnor_1510, retro_rnor_1665, retro_rnor_1869, retro_rnor_2053, retro_rnor_2659, retro_rnor_2669, retro_rnor_2713, retro_rnor_2776, retro_rnor_2809, retro_rnor_348, retro_rnor_959,
Sarcophilus harrisii ENSSHAG000000182551 retrocopy
retro_shar_518,
Tarsius syrichta ENSTSYG000000129492 retrocopies
retro_tsyr_1480, retro_tsyr_2122,
Tursiops truncatus ENSTTRG000000007093 retrocopies
retro_ttru_1066, retro_ttru_1204, retro_ttru_1788,
Tursiops truncatus ENSTTRG000000017932 retrocopies
retro_ttru_1486, retro_ttru_744,
Tursiops truncatus ENSTTRG0000000450527 retrocopies
retro_ttru_1202, retro_ttru_1223, retro_ttru_1251, retro_ttru_1331, retro_ttru_1362, retro_ttru_156, retro_ttru_157, retro_ttru_1678, retro_ttru_1732, retro_ttru_1806, retro_ttru_1813, retro_ttru_1874, retro_ttru_221, retro_ttru_311, retro_ttru_479, retro_ttru_599, retro_ttru_605, retro_ttru_607, retro_ttru_620, retro_ttru_63, retro_ttru_678, retro_ttru_708, retro_ttru_812, retro_ttru_882, retro_ttru_902, retro_ttru_926, retro_ttru_981,
Tursiops truncatus ENSTTRG000000075921 retrocopy
retro_ttru_1913,
Tursiops truncatus ENSTTRG00000014225 3 retrocopies
retro_ttru_1459 , retro_ttru_675, retro_ttru_9,
Xenopus tropicalis ENSXETG000000018061 retrocopy
retro_xtro_11,
Xiphophorus maculatus ENSXMAG000000004391 retrocopy
retro_xmac_2,


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