RetrogeneDB ID:

retro_etel_247

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:GeneScaffold_4177:101399..103053(+)
Located in intron of:ENSETEG00000010722
Retrocopy
information
Ensembl ID:ENSETEG00000010726
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:GK
Ensembl ID:ENSETEG00000008279
Aliases:None
Description:glycerol kinase [Source:HGNC Symbol;Acc:4289]


Retrocopy-Parental alignment summary:






>retro_etel_247
ATGGCCGCGGCGGAGAAAGCAGTTGTGGGCCCTCTGGTGGGCGCGGTCGACCAGGGCACCAGCTCCACGCGCTTTCTGGT
CTTCAACCCGAGGACCGCAGAGCTCCTTAGTCACCACCAGGTGGAAATCAAACAAGAGTTCCCCAGAGAGGGGTGGGTGG
AGGAAGACCCTCTGGAAATTCTGCAGTCTGTCCACGAGTGTATAGAGAAAACGTGTGAGAAACTCCGGGAGCTCAATGTT
GACCTTGCCGACATCAAAGCCATCGGCGTCAGCAACCAGAGGGAAACCACCGTCGTCTGGGACAAGGTGACAGGGCAGCC
TCTGTACAACGCGGTGCTGTGGCTGGACCTCCGAACCCAGTCCACGGTTGAGAACCTCAGCAAGAGGATTCCAGGGAACA
AAAACTTCGTCAGGCTCAAGACCGGCCTTCCGCTGAGCACCTACTTCAGCGCGGTGAAACTTCGCTGGATCCTTGACAAC
GTGGGTCAAGTTCAAAAAGCCGTGGAAGAAGGCCGCGCTCTCTTCGGGACCATTGATTCGTGGCTTATTTGGTGTCTGAC
CGGAGGAGCCAAAGGAGGCGTCCATTGTACGGATGTGACCAATGCCAGTCGGACGATGCTCTTCAACATCCATTCTTTGG
AATGGGACAAAGAGCTCTGTGACTTTTTTGAAATTCCAATGGCGATTCTTCCAAATATCCGGAGTTCTTCGGAGATCTAT
GGCCTCATGAAGGTCGGAGCCTTGAAAGGCGTGCCCATATCCGGGTGCTTGGGGGACCAGTCCGCTGCATTGGTGGGACA
AATGTGCTTTCAGGATGGTCAAGCCAAGAACACGTATGGGACAGGCTGTTTCTTGCTTTGTAATACAGGCCGTAAGTGTG
TATTTTCTGAGCATGGCCTTCTGACCACGGTGGCTTACAAACTAGGCAGAGACAAGCCGGTGTGTTACGCGCTGGAAGGT
TCTGTCGCTATTGCTGGCGCCGTTATTCGCTGGCTGCGAGACAATCTGGGAATCATCAGTACTTCCGAGGAATCCGAAAC
CCTTGCTAAAGAAGTCGGTACCTCTTACGGCTGTTACTTCGTCCCGGCGTTTTCAGGGTTATATGCACCGTATTGGGAGC
CCAGCGCAAGAGGGATCATCTGTGGTCTCACTCAGTTCACCAATAAATGTCACATTGCTTTCGCTGCACTAGAAGCTGTC
TGCTTCCAAACCCGAGAGATTCTGGATGCCATGAACCGTGACTGCGGGATCCCACTCAGTCATCTGCAAGTCGATGGAGG
AATGACCAGCAACAAAATCCTCATGCAGCTGCAAGCCGACATTCTGTACATCCCTGTCATGAAGCCCTCCATGCCTGAGA
CGACAGCTCTGGGTGCAGCGATGGCGGCGGGGGCGGCGGAAGGAGTGGGCGTCTGGAGCCTCGCCCCGGAGGATTTGGCC
GCAGTCACCATGGAGCGGTTTGAGCCCCAGATCAACGCGGAGGAAAGCGAAGTTCGTTATTCCACCTGGAAAAGGGCGGT
GATGAAGTCAATGGGCTGGGTTACTCACGCAGTCTTCTGACACGAGCAGCCCTAGTATCTTTTGTAGCCTGCCCTTGGGC
TTTTTTATCGTGAGTAGCCTGGTAATGTTAATCGGAGCAAGGTACATCTCAGGT

ORF - retro_etel_247 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.39 %
Parental protein coverage: 99.64 %
Number of stop codons detected: 0
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalMAAARKAALGPLVGAVDQGTSSTRFLVFNSRTAELLSHHQVEIKQEFPREGWVEQDPKEILQSVYECIEK
MAAA.KA..GPLVGAVDQGTSSTRFLVFN.RTAELLSHHQVEIKQEFPREGWVE.DP.EILQSV.ECIEK
RetrocopyMAAAEKAVVGPLVGAVDQGTSSTRFLVFNPRTAELLSHHQVEIKQEFPREGWVEEDPLEILQSVHECIEK
ParentalTCEKLRELNIDISNIKAIGVSNQRETTVVWDKLTGEPLYNAVVWLDLRTQSTVENLSKRIPGN-NFVKSK
TCEKLRELN.D...IKAIGVSNQRETTVVWDK.TG.PLYNAV.WLDLRTQSTVENLSKRIPGN.NFV..K
RetrocopyTCEKLRELNVDLADIKAIGVSNQRETTVVWDKVTGQPLYNAVLWLDLRTQSTVENLSKRIPGNKNFVRLK
ParentalTGLPLSTYFSAVKLRWILDNVRKVQKAVEENRALFGTIDSWLIWSLTGGAKGGVHCTDVTNASRTMLFNI
TGLPLSTYFSAVKLRWILDNV..VQKAVEE.RALFGTIDSWLIW.LTGGAKGGVHCTDVTNASRTMLFNI
RetrocopyTGLPLSTYFSAVKLRWILDNVGQVQKAVEEGRALFGTIDSWLIWCLTGGAKGGVHCTDVTNASRTMLFNI
ParentalHSLEWDKELCDFFEIPMAILPSVRSSSEIYGLMKAGALEGVPISGCLGDQSAALVGQMCFQDGQAKNTYG
HSLEWDKELCDFFEIPMAILP..RSSSEIYGLMK.GAL.GVPISGCLGDQSAALVGQMCFQDGQAKNTYG
RetrocopyHSLEWDKELCDFFEIPMAILPNIRSSSEIYGLMKVGALKGVPISGCLGDQSAALVGQMCFQDGQAKNTYG
ParentalTGCFLLCNTGHKCVFSEHGLLTTVAYKLGRDKPVYYALEGSVAIAGAVIRWLRDNLGIISTSEEIEKLAK
TGCFLLCNTG.KCVFSEHGLLTTVAYKLGRDKPV.YALEGSVAIAGAVIRWLRDNLGIISTSEE.E.LAK
RetrocopyTGCFLLCNTGRKCVFSEHGLLTTVAYKLGRDKPVCYALEGSVAIAGAVIRWLRDNLGIISTSEESETLAK
ParentalEVGTSYGCYFVPAFSGLYAPYWEPSARGIICGLTQFTNKCHIAFAFLEAVCFQTREILDAMNRDCGIPLS
EVGTSYGCYFVPAFSGLYAPYWEPSARGIICGLTQFTNKCHIAFA.LEAVCFQTREILDAMNRDCGIPLS
RetrocopyEVGTSYGCYFVPAFSGLYAPYWEPSARGIICGLTQFTNKCHIAFAALEAVCFQTREILDAMNRDCGIPLS
ParentalHLQVDGGMTSNKILMQLQADILYIPVVKPSMPETTALGAAMAAGAAEGVGVWSLDPEDLSAVTMERFEPQ
HLQVDGGMTSNKILMQLQADILYIPV.KPSMPETTALGAAMAAGAAEGVGVWSL.PEDL.AVTMERFEPQ
RetrocopyHLQVDGGMTSNKILMQLQADILYIPVMKPSMPETTALGAAMAAGAAEGVGVWSLAPEDLAAVTMERFEPQ
ParentalINAEESEIRYSTWKKAVMKSMGWAT-TQSSESGDPSIFCSLPLGFFIVSSMVMLIGARYISG
INAEESE.RYSTWK.AVMKSMGW.T.TQSS....PSIFCSLPLGFFIVSS.VMLIGARYISG
RetrocopyINAEESEVRYSTWKRAVMKSMGWVT>TQSSDTSSPSIFCSLPLGFFIVSSLVMLIGARYISG

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_247 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 14 parental genes, and 25 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000076333 retrocopies
retro_cjac_125, retro_cjac_3161, retro_cjac_4035,
Cavia porcellus ENSCPOG000000032612 retrocopies
retro_cpor_11, retro_cpor_20,
Echinops telfairi ENSETEG00000008279 2 retrocopies
retro_etel_2000, retro_etel_247 ,
Felis catus ENSFCAG000000042641 retrocopy
retro_fcat_140,
Homo sapiens ENSG000001988144 retrocopies
retro_hsap_3087, retro_hsap_3120, retro_hsap_4885, retro_hsap_70,
Loxodonta africana ENSLAFG000000076321 retrocopy
retro_lafr_30,
Monodelphis domestica ENSMODG000000024171 retrocopy
retro_mdom_234,
Mus musculus ENSMUSG000000250592 retrocopies
retro_mmus_119, retro_mmus_97,
Nomascus leucogenys ENSNLEG000000101022 retrocopies
retro_nleu_1650, retro_nleu_771,
Oryctolagus cuniculus ENSOCUG000000130232 retrocopies
retro_ocun_2, retro_ocun_81,
Rattus norvegicus ENSRNOG000000341162 retrocopies
retro_rnor_114, retro_rnor_34,
Sarcophilus harrisii ENSSHAG000000064701 retrocopy
retro_shar_35,
Ictidomys tridecemlineatus ENSSTOG000000087321 retrocopy
retro_itri_1436,
Tarsius syrichta ENSTSYG000000082491 retrocopy
retro_tsyr_29,


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