RetrogeneDB ID: | retro_hsap_4212 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 9:117609032..117610868(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000229817 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PRPF4B | ||
Ensembl ID: | ENSG00000112739 | ||
Aliases: | PRPF4B, PR4H, PRP4, PRP4H, PRP4K, dJ1013A10.1 | ||
Description: | PRP4 pre-mRNA processing factor 4 homolog B (yeast) [Source:HGNC Symbol;Acc:17346] |
Percent Identity: | 81.83 % |
Parental protein coverage: | 60.97 % |
Number of stop codons detected: | 9 |
Number of frameshifts detected | 6 |
Parental | SRSLERKRREPERRRLSSPRTRPRDDILSRRERSKDASPINRWSPTRRRSRSPIRRRSRSPLRRSRSPR- |
SRSLE.KRREPERRR.SS.RT.P.DDIL.R.ER.KDASPINRWSPTRR.SRSPI.RRS.SPLR.S...R. | |
Retrocopy | SRSLEGKRREPERRRPSSSRTQPQDDILNRCERLKDASPINRWSPTRRSSRSPIKRRSYSPLRHSTKIRS |
Parental | -RRSRSPRRRDRGRRSRSRLRRRSRSRGGRRRRSRSKVKEDKFKGSLSEGMKVEQESSSDDNLEDFDVEE |
.RRSRSP..RDRG.RSRS.LRR..RS.GGRR.RSRSKVKEDKFKGS.SEGMK.EQES.SDD.LEDFDVEE | |
Retrocopy | PRRSRSPQKRDRGWRSRSCLRRWPRSWGGRR*RSRSKVKEDKFKGSVSEGMKIEQESLSDDKLEDFDVEE |
Parental | EDEEALIEQRRIQRQAIVQKYKYLAEDSNMSVPSEPSSPQSSTRTRSPSPDDILERVAADVKEYERENVD |
EDEEALIEQRRIQRQAIVQKYKYLAEDSNMS..S.PS.PQSS..T.SPSPDD.LE.VAADVKEYERENVD | |
Retrocopy | EDEEALIEQRRIQRQAIVQKYKYLAEDSNMSMSS*PSIPQSSMKT*SPSPDDTLE*VAADVKEYERENVD |
Parental | TFEASVKAKHNLMTVEQNNGSSQKKLLAPDMF-TESDDMFAAYFDSARLRAAGIGKD-FKENPNLRDNWT |
TF.ASVKAKHNLMTVEQNN.SSQKKLLA.D.F......MFA.YFDSA.L..AG.G.D.FKENPNLRDNWT | |
Retrocopy | TFQASVKAKHNLMTVEQNNSSSQKKLLALDKF<LQNLMMFADYFDSACLWVAGNG*D<FKENPNLRDNWT |
Parental | DAEGYYRVNIGEVLDKRYNVYGYTGQGVFSNVVRARDNARANQEVAVKIIRNNELMQKTGLKELEFLKKL |
DAEGYY.VNIGEVLDK.YNVYGYTGQGVFSNV..ARDNARANQEVAVK.IRNNELMQKTGLKELE.LK.. | |
Retrocopy | DAEGYYHVNIGEVLDKCYNVYGYTGQGVFSNVL*ARDNARANQEVAVKVIRNNELMQKTGLKELELLKEF |
Parental | NDADPDDKFHCLR-LFRHFYHKQHLCLVFEPLSMNLREVLKKYGKDVGLHIKAVRSYSQQLFLALKLLKR |
.DADPDDK.HCL..LFR.FYHKQHLCL.FEPLSMNL.E.LKKY.KD.G..IKAVRS.SQQ.FLALKLLKR | |
Retrocopy | -DADPDDKLHCLH<LFRRFYHKQHLCLIFEPLSMNL*EMLKKYDKDIGFRIKAVRSHSQQFFLALKLLKR |
Parental | CNILHADIKPDNILVN-ESKTILKLCDFGSASHVADNDITPYLVSRFYRAPEIIIGKSYDYGIDMWSVGC |
C.ILHAD.KPDNILVN..SKTILKLC.FG.ASH.ADNDITPYLVSRFY.A.EIIIGK..DYGIDMWSVGC | |
Retrocopy | CDILHADNKPDNILVN<SSKTILKLCNFGLASHAADNDITPYLVSRFYHALEIIIGKCCDYGIDMWSVGC |
Parental | TLYELYTGKILF-PGKTNNHMLKLAMDLKGKMPNKMIR-KGVFKDQHFDQNLNFMYIEVDKVTEREKVTV |
TL......K..F.PGKTNNHMLKL.M.LKG.MPN.MI..KGVFKDQHFDQNLNFMYIEVDKVT.RE.VTV | |
Retrocopy | TLNSILE-KFYF<PGKTNNHMLKLVMNLKGQMPNEMIQ<KGVFKDQHFDQNLNFMYIEVDKVTDREIVTV |
Parental | MSTINPTKDLLADLIGCQRLPEDQRKKVHQLKDLLDQILMLDPAKRISINQALQHAFIQEKI |
MSTINPTKDLLA.LIGCQ.LPEDQ.KKV..LKDLLDQILML..AK.ISINQALQHAFIQEKI | |
Retrocopy | MSTINPTKDLLANLIGCQTLPEDQCKKVY*LKDLLDQILMLGLAK*ISINQALQHAFIQEKI |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 45 .00 RPM |
bodymap2_adrenal | 0 .00 RPM | 91 .36 RPM |
bodymap2_brain | 0 .00 RPM | 55 .18 RPM |
bodymap2_breast | 0 .00 RPM | 59 .61 RPM |
bodymap2_colon | 0 .00 RPM | 72 .74 RPM |
bodymap2_heart | 0 .00 RPM | 45 .93 RPM |
bodymap2_kidney | 0 .00 RPM | 96 .64 RPM |
bodymap2_liver | 0 .00 RPM | 32 .80 RPM |
bodymap2_lung | 0 .00 RPM | 72 .20 RPM |
bodymap2_lymph_node | 0 .00 RPM | 128 .90 RPM |
bodymap2_ovary | 0 .00 RPM | 122 .22 RPM |
bodymap2_prostate | 0 .00 RPM | 92 .23 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 27 .88 RPM |
bodymap2_testis | 0 .00 RPM | 83 .29 RPM |
bodymap2_thyroid | 0 .00 RPM | 131 .97 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 109 .92 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_2859 |
Gorilla gorilla | retro_ggor_2821 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Homo sapiens | ENSG00000112739 | 1 retrocopy |
retro_hsap_4212 ,
|
Homo sapiens | ENSG00000176444 | 1 retrocopy | |
Homo sapiens | ENSG00000179335 | 1 retrocopy | |
Gorilla gorilla | ENSGGOG00000006422 | 1 retrocopy | |
Myotis lucifugus | ENSMLUG00000005901 | 1 retrocopy | |
Monodelphis domestica | ENSMODG00000009756 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000011291 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000017683 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .00 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .00 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .04 RPM |
CEU_NA12751 | 0 .00 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .00 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .00 RPM |
FIN_HG00277 | 0 .00 RPM |
FIN_HG00315 | 0 .00 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .00 RPM |
FIN_HG00338 | 0 .00 RPM |
FIN_HG00349 | 0 .00 RPM |
FIN_HG00375 | 0 .00 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .00 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .00 RPM |
GBR_HG00114 | 0 .00 RPM |
GBR_HG00119 | 0 .00 RPM |
GBR_HG00131 | 0 .00 RPM |
GBR_HG00133 | 0 .00 RPM |
GBR_HG00134 | 0 .00 RPM |
GBR_HG00137 | 0 .00 RPM |
GBR_HG00142 | 0 .00 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .00 RPM |
TSI_NA20518 | 0 .00 RPM |
TSI_NA20532 | 0 .00 RPM |
TSI_NA20538 | 0 .00 RPM |
TSI_NA20756 | 0 .00 RPM |
TSI_NA20765 | 0 .00 RPM |
TSI_NA20771 | 0 .03 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .00 RPM |
YRI_NA18907 | 0 .00 RPM |
YRI_NA18916 | 0 .00 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .00 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .00 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .00 RPM |
YRI_NA19223 | 0 .00 RPM |
# | Indel coordinates | AFR, African | AMR, Ad Mixed American | EUR, European | EAS, East Asian | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ASW | YRI | LWK | MXL | PUR | CLM | CEU | IBS | GBR | FIN | TSI | JPT | CHB | CHS | ||
1. | 9:117606275..117609000 | 100 | 100 | 100 | 100 | 99.09 | 100 | 100 | 100 | 100 | 100 | 99.49 | 100 | 100 | 100 |
Indel #1, located at the genomic coordinates 9:117606275..117609000.