RetrogeneDB ID:

retro_etel_346

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:GeneScaffold_5738:108618..109920(+)
Located in intron of:ENSETEG00000000706
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KPNA2
Ensembl ID:ENSETEG00000004445
Aliases:None
Description:karyopherin alpha 2 (RAG cohort 1, importin alpha 1) [Source:HGNC Symbol;Acc:6395]


Retrocopy-Parental alignment summary:






>retro_etel_346
GGTACTGTACACTGGTCTGTGGATGACATTGTCAAAGGCATCAATAGCAACAATTTGGAAAGCCAGCTCCAGGCTACTCA
AGCTGCTAGGAAACTGCTTTCCAGGGCAAAACAGCCCCCTATAGATAACATAATACGACCAGGCTTGATTCTGAAATTTG
TGTCCTTCTTGGGCAGAACTGACTGTAGCCCCATTCAGTTTGAGTCTGCTTGGGCACTCACTAACATTGCATCTGGGACA
TGAGAACAGACCAAAGCTGTGGTCGAGGGAGGTGCAATCCCAGCATTCATTTCTCTGTTGGCATCGCCGCATGCTCACAT
CAGTGAACCAGCTGTTTGGGCTTTGGCCAACATTGCAGGTGATGGCTCACCTTTCCGGGACTTGGTTATCAAGTATAGTG
CAGTGTCCCTCTGTTGGTTCTCCTTGCAGTTCCTGATATGTCTTCTTTAGCATGTGGTTCCTTGCGGAATCTTACCTGGA
CACTTTCAAACCTCTGTCGGAACAAGAATCCCGCACCCCCATTAGATGCTGTTGAGCAGATTCTCCCTATTTTAGTTCGT
CTTCTGCATCACGATGACCCAGAAGTGTTGGCCGATATCTGCTGGGCCAGTTCCTATCTTACTGATGGTCCAAATGAACA
CATTGAAATGGTTGTGAAAACAGGAGTTGTGCAACAACTTGTGAAACTTCTTGGAGCGACCGATTTGCCCATTGTGACTC
CTGCACTAAGAGCCATAGGGAATGTTGTCACGGGAACAGATGCGCAGACTCAGGTTGTAATAGGTGCAGGAGCCCTTGCT
GTGTTTCCTAGCCTGCTAACTAACTCCAAGCAAATATTCAGAAGGAAGCCACCTGGACAATGTCACACATCACAGCAGGC
CGTCAGGACCAGATACAGCAAGTGGTGCATCATGGATTAGTCCCATTCCTCATCAACATTCTCACGAAGTCAGACTTTAA
GACTCAAAAAGAAGCCGTCTGCGTTGTGACCAACTATCCAAGTGGTGGAACAGTTGACCAGATTGTCCCCCTTGTCCACT
GTGGCATAGTCGAACCATTGATGAGCCTTTTAACCGTGAAGGACACCAAGATTCTTTGGTTATTCTGGATGCCATTTCCA
ATATTTTTCAAGCTGCTGAGAAAATTAATGAAACTGAGAAACTTAGTTTAATGATCGAAGAATGTAAAGGCTTGGACAAG
ATTGAAGCCCTGCAAAACCACGAAAATGAGTCTGTGCACAAGGCCCCCGTGAATGATATTCAGAACTATTTCTCTGACGA
GCAGGAAGAAGATCAGAATGTG

ORF - retro_etel_346 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.18 %
Parental protein coverage: 94.98 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalGTVNWSVDDIVKGINSNNLESQLQATQAARKLLSREKQPPIDNIIRAGLIPKFVSFLGRTDCSPIQFESA
GTV.WSVDDIVKGINSNNLESQLQATQAARKLLSR.KQPPIDNIIR.GLI.KFVSFLGRTDCSPIQFESA
RetrocopyGTVHWSVDDIVKGINSNNLESQLQATQAARKLLSRAKQPPIDNIIRPGLILKFVSFLGRTDCSPIQFESA
ParentalWALTNIASGTSEQTKAVVEGGAIPAFISLLASPHAHISEQAVWALGNIAGDGSPFRDLVIKYGAVD-PLL
WALTNIASGT.EQTKAVVEGGAIPAFISLLASPHAHISE.AVWAL.NIAGDGSPFRDLVIKY.AV..PLL
RetrocopyWALTNIASGT*EQTKAVVEGGAIPAFISLLASPHAHISEPAVWALANIAGDGSPFRDLVIKYSAVS<PLL
ParentalALLAVPDMSSLACGYLRNLTWTLSNLCRNKNPAPPLDAVEQILPTLVRLLHHDDPEVLADTCWAISYLTD
.LLAVPDMSSLACG.LRNLTWTLSNLCRNKNPAPPLDAVEQILP.LVRLLHHDDPEVLAD.CWA.SYLTD
RetrocopyVLLAVPDMSSLACGSLRNLTWTLSNLCRNKNPAPPLDAVEQILPILVRLLHHDDPEVLADICWASSYLTD
ParentalGPNERIEMVVKTGVVPQLVKLLGATDLPIVTPALRAIGNIVTGTDEQTQVVIEAGALAVFPSLLTNPK-T
GPNE.IEMVVKTGVV.QLVKLLGATDLPIVTPALRAIGN.VTGTD.QTQVVI.AGALAVFPSLLTN.K..
RetrocopyGPNEHIEMVVKTGVVQQLVKLLGATDLPIVTPALRAIGNVVTGTDAQTQVVIGAGALAVFPSLLTNSK<A
ParentalNIQKEATWTMSNITAGRQDQIQQVVNHGLVPFLIDILTKSDFKTQKEAVWAVTNYTSGGTVEQIVYLVHC
NIQKEATWTMS.ITAGRQDQIQQVV.HGLVPFLI.ILTKSDFKTQKEAV..VTNY.SGGTV.QIV.LVHC
RetrocopyNIQKEATWTMSHITAGRQDQIQQVVHHGLVPFLINILTKSDFKTQKEAVCVVTNYPSGGTVDQIVPLVHC
ParentalGIIEPLMSLLTVKDTKIL-LVILDAISNIFQAAEKINETEKLSIMIEECGGLDKIEALQNHENESVYKAS
GI.EPLMSLLTVKDTKIL.LVILDAISNIFQAAEKINETEKLS.MIEEC.GLDKIEALQNHENESV.KA.
RetrocopyGIVEPLMSLLTVKDTKIL<LVILDAISNIFQAAEKINETEKLSLMIEECKGLDKIEALQNHENESVHKAP
ParentalLNLIEKYFSVEEEEDQNV
.N.I..YFS.E.EEDQNV
RetrocopyVNDIQNYFSDEQEEDQNV

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






Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_346 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 25 parental genes, and 72 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000184113 retrocopies
Bos taurus ENSBTAG000000122251 retrocopy
Canis familiaris ENSCAFG000000115982 retrocopies
Cavia porcellus ENSCPOG000000263181 retrocopy
Dasypus novemcinctus ENSDNOG000000191516 retrocopies
Equus caballus ENSECAG000000205732 retrocopies
Echinops telfairi ENSETEG000000000961 retrocopy
Echinops telfairi ENSETEG00000004445 2 retrocopies
retro_etel_346 , retro_etel_347,
Echinops telfairi ENSETEG000000195461 retrocopy
Felis catus ENSFCAG000000019362 retrocopies
Homo sapiens ENSG000001824811 retrocopy
Gorilla gorilla ENSGGOG000000275352 retrocopies
Myotis lucifugus ENSMLUG000000279467 retrocopies
Macaca mulatta ENSMMUG000000182563 retrocopies
Monodelphis domestica ENSMODG000000038971 retrocopy
Mus musculus ENSMUSG000000183621 retrocopy
Nomascus leucogenys ENSNLEG000000017493 retrocopies
Oryctolagus cuniculus ENSOCUG000000159134 retrocopies
Otolemur garnettii ENSOGAG000000276727 retrocopies
Pongo abelii ENSPPYG000000085691 retrocopy
Pteropus vampyrus ENSPVAG000000049762 retrocopies
Rattus norvegicus ENSRNOG000000153291 retrocopy
Sarcophilus harrisii ENSSHAG000000113911 retrocopy
Tupaia belangeri ENSTBEG0000000627414 retrocopies
Vicugna pacos ENSVPAG000000018553 retrocopies



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