RetrogeneDB ID:

retro_mmur_1562

Retrocopy
location
Organism:Mouse Lemur (Microcebus murinus)
Coordinates:scaffold_832:297397..298559(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HNRNPK
Ensembl ID:ENSMICG00000015780
Aliases:None
Description:heterogeneous nuclear ribonucleoprotein K [Source:HGNC Symbol;Acc:5044]


Retrocopy-Parental alignment summary:






>retro_mmur_1562
ATGGAAACTGAATAGCCAGAGGGAAACCTTCCCCAACACTGAAACCAATGGTGAATTTGGTAAACGCCCTGCAGAAGATA
TGGAAGAGGAACAAACATTAAAAGGTCTAGAAACACTGATGAGATGGTAGAATTACGCATTCTGCTTCAGAGCAAGAATG
CTGGGGCAGTGGTTGGAAAAGGAGGCAAGAATATTAAGGCTCTCCGTACTGACTACAATGCCAGTGTTTCAGTCCCAGAC
AGCAGTGGCCCTGAGCGCACATTGAGTATCAGTGCTGATATTGAAACAATTGGAGAAATTCTGAAGAAAATCATCCCTAC
CTTGGAAGAGGGCCTGCAGTTGTCATCACCCACGGCAACCAGCCAGCTCCCGCTCGAATCTGATGCTAGTGGAATGCTTA
AATTACCAGCACTATAAAGGAAGCGACTTTGACTGCAGAGTTGAGACTGTTGATTCATCAGAGTCTGTCGGGAGGAATTA
TTGGGGTCAAAGGTGCTAAAATCAAAGAACTTCGTGAGACACTCAAACAACAATCAAGCTTTTCCAGGAATGCTGTCCTC
ATTCCACTGACAGAGTCATTCTTATTGGAGGAAAACCTGATAGGGTTGTAGAGTGCATAAAGATCATTCTCAATCTTATA
TCTGAGTCTCCCATCAAAGGACGTGCACAGCCTTATGATCCCAATTTTTACGATGAAACTTATGATTATGGTGGTTTTAC
AATGATGTTTGGTGACCGCTGTGGAAGGCCTGTAGGATTTCCAATGTGGGGAAGAGGTGATTTTGACAGAATGCCTCCTG
GTCAGGGTGGGCGTCCCATGCCTCCGTCTAGAAGAGATTATGATGATATGAGCCCTCGTGGAGGACCACCTCCCCCTCCT
CCTGGTAGAGGTGGCTGGGGTGGTAGTAGAGCTCAGAATCTCCCTCTTCCTCCTTCACCACCTCCTGGAGGAGGAGATCT
AATTGCCTATGATAGAAGAGGAAGACCTGGAGACCGCTACGATGGCATGGTTGGTTTCAGTGCTGATGAAACTTGGGACT
CTGCAGTAGATACATGGAGCCCATCAGAATGGCAGATGGCTTATGAACCACAGGGAGGCTCTGGATATGATTATTCCTAT
GCAGGGGGTCGTGGCTCATATGGTGATCTTGGTGGACCTATT

ORF - retro_mmur_1562 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.76 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalMETEQPE-ETFPNTETNGEFGKRPAEDMEEEQAFK-RSRNTDEMVELRILLQSKNAGAVIGKGGKNIKAL
METE.PE.ETFPNTETNGEFGKRPAEDMEEEQ..K.RSRNTDEMVELRILLQSKNAGAV.GKGGKNIKAL
RetrocopyMETE*PE>ETFPNTETNGEFGKRPAEDMEEEQTLK<RSRNTDEMVELRILLQSKNAGAVVGKGGKNIKAL
ParentalRTDYNASVSVPDSSGPERILSISADIETIGEILKKIIPTLXXGLQLPSPNATSQLPLESDA-VECLNYQH
RTDYNASVSVPDSSGPER.LSISADIETIGEILKKIIPTL..GLQL.SP.ATSQLPLESDA.VECLNYQH
RetrocopyRTDYNASVSVPDSSGPERTLSISADIETIGEILKKIIPTLEEGLQLSSPTATSQLPLESDA>VECLNYQH
ParentalYKGSDFDC-ELRLLIHQSLAGGIIGVKGAKIKELRE-NTQTTIKLFQECCPHSTDRVVLIGGKPDRVVEC
YKGSDFDC.ELRLLIHQSL.GGIIGVKGAKIKELRE..TQTTIKLFQECCPHSTDRV.LIGGKPDRVVEC
RetrocopyYKGSDFDC>ELRLLIHQSLSGGIIGVKGAKIKELRE<DTQTTIKLFQECCPHSTDRVILIGGKPDRVVEC
ParentalIKIILDLISESPIRAQ---YDP-FYDE---YDVFTMMFDD--GR-VGFPMRRGGD--RMPPGRGGR-MPP
IKIIL.LISESPI......YDP.FYDE...Y..FTMMF.D..GR.VGFPM...GD..RMPPG.GGR.MPP
RetrocopyIKIILNLISESPIKGRAQPYDPNFYDETYDYGGFTMMFGDRCGRPVGFPMWGRGDFDRMPPGQGGRPMPP
ParentalSRRDYDDMSPRRGPPPPPPGRGGRGGSRARNLPLPPPPPPRGGDLMAYDRRGRPGDRYDGMVGFSADETW
SRRDYDDMSPR.GPPPPPPGRGG.GGSRA.NLPLPP.PPP.GGDL.AYDRRGRPGDRYDGMVGFSADETW
RetrocopySRRDYDDMSPRGGPPPPPPGRGGWGGSRAQNLPLPPSPPPGGGDLIAYDRRGRPGDRYDGMVGFSADETW
ParentalDSAIDTWSPSEWQMAYEPQGGSGYDYSYAGGRGSYGDLGGPI
DSA.DTWSPSEWQMAYEPQGGSGYDYSYAGGRGSYGDLGGPI
RetrocopyDSAVDTWSPSEWQMAYEPQGGSGYDYSYAGGRGSYGDLGGPI

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






RNA-Seq - click to see more details

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Microcebus murinus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmur_1562 retrocopy.

TSS - click to see more details

Microcebus murinus was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmur_1562 was not experimentally validated.

Retrocopy orthology:
Microcebus murinus 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 32 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000211312 retrocopies
retro_btau_468, retro_btau_605,
Homo sapiens ENSG000001651193 retrocopies
retro_hsap_2323, retro_hsap_2674, retro_hsap_3385,
Microcebus murinus ENSMICG000000116512 retrocopies
retro_mmur_1226, retro_mmur_1228,
Microcebus murinus ENSMICG00000015780 3 retrocopies
retro_mmur_1562 , retro_mmur_235, retro_mmur_448,
Myotis lucifugus ENSMLUG000000058712 retrocopies
retro_mluc_128, retro_mluc_561,
Macaca mulatta ENSMMUG000000188711 retrocopy
retro_mmul_2111,
Monodelphis domestica ENSMODG000000084021 retrocopy
retro_mdom_1666,
Mus musculus ENSMUSG000000215462 retrocopies
retro_mmus_1131, retro_mmus_2137,
Otolemur garnettii ENSOGAG000000074783 retrocopies
retro_ogar_2635, retro_ogar_2966, retro_ogar_3086,
Pongo abelii ENSPPYG000000193273 retrocopies
retro_pabe_2105, retro_pabe_2106, retro_pabe_42,
Sarcophilus harrisii ENSSHAG000000171091 retrocopy
retro_shar_820,
Tupaia belangeri ENSTBEG000000012891 retrocopy
retro_tbel_2491,
Tursiops truncatus ENSTTRG000000049061 retrocopy
retro_ttru_1622,
Tursiops truncatus ENSTTRG000000166937 retrocopies
retro_ttru_1144, retro_ttru_180, retro_ttru_1922, retro_ttru_444, retro_ttru_813, retro_ttru_930, retro_ttru_937,


Copyright © RetrogeneDB 2014-2017