RetrogeneDB ID:

retro_etel_651

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_130435:342..1060(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSETEG00000013094
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSETEG00000001056
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_etel_651
ATGGCGTCCAGTAGTGACTGGCTGTCCATGGTGAATGTCATGTTGGTGATGGCCTATTGGAGCCTGGTGTTTGTACTGCT
ATTTATTTTTGTGAAGAGGGAAATCATGTGCTTTGCAATGAAATCTTGGAGGGGACCTCATGTCCCTGTGGGACACAATG
CCCCCATGGATCTGAAAGAAGAGATTGATCGGCGACTATTCAGAGTTCAGGATAGCAAGTAAGAACCTCAGCTCCTTGCA
GTTGATGATGCCAGACTGCCACAGCTGGAAACCCAGGGAAATCAAAATTGTTACAACTGTCTGTACAAGATGAAAGCTCT
GGACGCCATTCATGCCTTTCAGATCCCATTTCACAGTGAAGGCCGGCATCCCCGTCCCCTAATGGGCAGAAATTTCCATT
CCTACCTGCTCAATTTTCAAAATGCTACTACTCCTTTCAAGGGTGTGTGCAAGGCCCTTGTTGATTCCCTGCTGCATAGC
TATGAGGCAGCACGCTATGGGACAGGGCTCTTTGGCCAGAGTGAGAACCTGCGCTCTCAAGAGGCCCTGACTGAGCTGGC
CACTGTGGGTCAAAAGCATGAAAAGGGAGCTCTCAGCGACACCCACCAGTCAGCAGCCAAAAGATCTTACCCAATCTCCC
TGAAGTCTCCAAATACCTTCCAGGTGACATAACTTCCCTTCCAGTCAGAAAGAGTTAATCGTGGCCAAGCATGTCCTC

ORF - retro_etel_651 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.55 %
Parental protein coverage: 93.68 %
Number of stop codons detected: 2
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalMASSSNWLSGVNVVLVMAYGSLVFVLLFIFVKRQIMRFAMKSRRGPHVPVGHNAPKDLKEEIDIRLSRVQ
MASSS.WLS.VNV.LVMAY.SLVFVLLFIFVKR.IM.FAMKS.RGPHVPVGHNAP.DLKEEID.RL.RVQ
RetrocopyMASSSDWLSMVNVMLVMAYWSLVFVLLFIFVKREIMCFAMKSWRGPHVPVGHNAPMDLKEEIDRRLFRVQ
ParentalDIKYEPQLLADDDARLLQLETQGNQNCYNYLYRMKALDALRASEIPIHTKGRHPRSLMSRNFRSYLLDLR
D.K.EPQLLA.DDARL.QLETQGNQNCYN.LY.MKALDA..A..IP.H..GRHPR.LM.RNF.SYLL...
RetrocopyDSK*EPQLLAVDDARLPQLETQGNQNCYNCLYKMKALDAIHAFQIPFHSEGRHPRPLMGRNFHSYLLNFQ
ParentalNATTPFKGVRKALIDTLLDGYETARYGTGVFSQSEYLRYQEALTELAT-AVKARSGSSQRHHQSAA-KDL
NATTPFKGV.KAL.D.LL..YE.ARYGTG.F.QSE.LR.QEALTELAT...K...G.....HQSAA.KDL
RetrocopyNATTPFKGVCKALVDSLLHSYEAARYGTGLFGQSENLRSQEALTELATVGQKHEKGALSDTHQSAA>KDL
ParentalTQSP-EVSPTTIQVTYL-PSNQKSK-RAKHFL
TQSP...SP.T.QVT.L.PS.QK....AKH.L
RetrocopyTQSP<LKSPNTFQVT*L>PSSQKELIVAKHVL

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Echinops telfairi was not studied using ChIP-Seq data.

EST - click to see more details

Echinops telfairi was not studied using EST data.

TSS - click to see more details

Echinops telfairi was not studied using FANTOM5 data.

Lab - click to see more details

retro_etel_651 was not experimentally validated.

Retrocopy orthology:
Echinops telfairi 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 49 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000118651 retrocopy
retro_amel_190,
Callithrix jacchus ENSCJAG000000097221 retrocopy
retro_cjac_175,
Dasypus novemcinctus ENSDNOG000000191601 retrocopy
retro_dnov_2515,
Dipodomys ordii ENSDORG000000054541 retrocopy
retro_dord_190,
Equus caballus ENSECAG000000175852 retrocopies
retro_ecab_618, retro_ecab_814,
Echinops telfairi ENSETEG00000001056 15 retrocopies
retro_etel_1138, retro_etel_1318, retro_etel_1388, retro_etel_1633, retro_etel_2182, retro_etel_2205, retro_etel_2206, retro_etel_394, retro_etel_651 , retro_etel_719, retro_etel_720, retro_etel_773, retro_etel_842, retro_etel_957, retro_etel_981,
Macropus eugenii ENSMEUG000000026006 retrocopies
retro_meug_1149, retro_meug_1298, retro_meug_1439, retro_meug_1637, retro_meug_213, retro_meug_69,
Myotis lucifugus ENSMLUG000000133381 retrocopy
retro_mluc_537,
Monodelphis domestica ENSMODG000000172373 retrocopies
retro_mdom_1283, retro_mdom_2003, retro_mdom_323,
Mus musculus ENSMUSG000000279426 retrocopies
retro_mmus_1014, retro_mmus_1018, retro_mmus_1020, retro_mmus_1107, retro_mmus_1792, retro_mmus_490,
Otolemur garnettii ENSOGAG000000120082 retrocopies
retro_ogar_2563, retro_ogar_38,
Ochotona princeps ENSOPRG000000072442 retrocopies
retro_opri_426, retro_opri_586,
Pongo abelii ENSPPYG000000007852 retrocopies
retro_pabe_3590, retro_pabe_969,
Pteropus vampyrus ENSPVAG000000027171 retrocopy
retro_pvam_696,
Rattus norvegicus ENSRNOG000000177581 retrocopy
retro_rnor_139,
Sarcophilus harrisii ENSSHAG000000129151 retrocopy
retro_shar_740,
Tupaia belangeri ENSTBEG000000138661 retrocopy
retro_tbel_177,
Tarsius syrichta ENSTSYG000000127771 retrocopy
retro_tsyr_91,
Tursiops truncatus ENSTTRG000000158241 retrocopy
retro_ttru_923,


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