RetrogeneDB ID: | retro_hsap_1354 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 14:65745984..65747038(+) | ||
Located in intron of: | ENSG00000258760 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000259078 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PTBP1 | ||
Ensembl ID: | ENSG00000011304 | ||
Aliases: | PTBP1, HNRNP-I, HNRNPI, HNRPI, PTB, PTB-1, PTB-T, PTB2, PTB3, PTB4, pPTB | ||
Description: | polypyrimidine tract binding protein 1 [Source:HGNC Symbol;Acc:9583] |
Percent Identity: | 86.91 % |
Parental protein coverage: | 66.67 % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 5 |
Parental | MDGIVPDIAVGTKRGSDELFSTCVTNGPFIMSSNSASAANGNDSKKFKGDSRSAGVPSRVIHIRKLP-ID |
MDGIVPDIAVGTKRGSDELFS.CVTN.PFIMSSNSASAANG..SKKFKGDSRSAGVPSRV.HI.KLP.ID | |
Retrocopy | MDGIVPDIAVGTKRGSDELFSACVTNRPFIMSSNSASAANGHGSKKFKGDSRSAGVPSRVTHIQKLP<ID |
Parental | VTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKELKTD |
V.EGEVISL.LPFGKVTNLLMLKGKNQAFI.M.TEEAANTMVNYYTSVTPVLRGQPIYIQFSNHK.LKTD | |
Retrocopy | VIEGEVISLELPFGKVTNLLMLKGKNQAFIKMSTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKGLKTD |
Parental | SSPNQARAQAAL-QAVNSVQSGNLALAASAAAVDAGMAMAGQSPVLRIIVENLFYPVTLDVLHQIFSKFG |
SSPNQAR..AAL.QAVNSVQSGNLA..A.AAAVDAGMAMAGQS.VLRIIVENLFYP.TLDVLHQIFSKFG | |
Retrocopy | SSPNQARDPAAL<QAVNSVQSGNLAWTAPAAAVDAGMAMAGQSLVLRIIVENLFYPTTLDVLHQIFSKFG |
Parental | TVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTSLNVKYNNDKSRDY-TR |
TV.K.ITF.K.NQFQALLQY.DP..AQH.KLSLD.QN.YNAC.TL.IDFSKL.SLNVKYNNDKSRDY..R | |
Retrocopy | TV-KTITFIKDNQFQALLQYTDPENAQHTKLSLDWQNTYNACHTLCIDFSKLISLNVKYNNDKSRDY<PR |
Parental | PDLPSGDSQPSLDQT-MAAAFGLSVPNVHGALAPL-AIPSAAAAAAAAGRIAIPGLAGAGNSVLLVSNLN |
PDLPSGDS.PSLDQT.MA.AF.LSVPN.HGALAP..AIPSA.AAAAAAG.IAI.GLAG.GNSVLLVS.LN | |
Retrocopy | PDLPSGDS*PSLDQT<MAVAFDLSVPNIHGALAPR<AIPSAVAAAAAAGQIAILGLAGTGNSVLLVSGLN |
Parental | PERVTPQSL |
PERVTPQSL | |
Retrocopy | PERVTPQSL |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 128 .21 RPM |
bodymap2_adrenal | 0 .08 RPM | 157 .82 RPM |
bodymap2_brain | 0 .00 RPM | 21 .61 RPM |
bodymap2_breast | 0 .04 RPM | 68 .70 RPM |
bodymap2_colon | 0 .00 RPM | 75 .35 RPM |
bodymap2_heart | 0 .00 RPM | 30 .81 RPM |
bodymap2_kidney | 0 .00 RPM | 114 .18 RPM |
bodymap2_liver | 0 .00 RPM | 61 .55 RPM |
bodymap2_lung | 0 .05 RPM | 158 .40 RPM |
bodymap2_lymph_node | 0 .13 RPM | 148 .29 RPM |
bodymap2_ovary | 0 .08 RPM | 124 .78 RPM |
bodymap2_prostate | 0 .00 RPM | 104 .99 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 32 .19 RPM |
bodymap2_testis | 0 .09 RPM | 102 .24 RPM |
bodymap2_thyroid | 0 .00 RPM | 97 .87 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 162 .72 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_928 |
Gorilla gorilla | retro_ggor_1054 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Callithrix jacchus | ENSCJAG00000020162 | 1 retrocopy | |
Ciona savignyi | ENSCSAVG00000007421 | 1 retrocopy | |
Equus caballus | ENSECAG00000018845 | 1 retrocopy | |
Echinops telfairi | ENSETEG00000006890 | 1 retrocopy | |
Homo sapiens | ENSG00000011304 | 1 retrocopy |
retro_hsap_1354 ,
|
Gorilla gorilla | ENSGGOG00000005090 | 1 retrocopy | |
Macropus eugenii | ENSMEUG00000006710 | 2 retrocopies | |
Myotis lucifugus | ENSMLUG00000003320 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000000864 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000009289 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000010165 | 1 retrocopy | |
Rattus norvegicus | ENSRNOG00000010448 | 2 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .24 RPM |
CEU_NA11843 | 1 .14 RPM |
CEU_NA11930 | 1 .66 RPM |
CEU_NA12004 | 0 .46 RPM |
CEU_NA12400 | 1 .54 RPM |
CEU_NA12751 | 0 .78 RPM |
CEU_NA12760 | 0 .81 RPM |
CEU_NA12827 | 1 .46 RPM |
CEU_NA12872 | 0 .41 RPM |
CEU_NA12873 | 1 .18 RPM |
FIN_HG00183 | 1 .43 RPM |
FIN_HG00277 | 0 .15 RPM |
FIN_HG00315 | 0 .86 RPM |
FIN_HG00321 | 0 .76 RPM |
FIN_HG00328 | 0 .26 RPM |
FIN_HG00338 | 0 .47 RPM |
FIN_HG00349 | 0 .60 RPM |
FIN_HG00375 | 0 .54 RPM |
FIN_HG00377 | 0 .48 RPM |
FIN_HG00378 | 0 .30 RPM |
GBR_HG00099 | 0 .15 RPM |
GBR_HG00111 | 0 .24 RPM |
GBR_HG00114 | 0 .39 RPM |
GBR_HG00119 | 0 .31 RPM |
GBR_HG00131 | 0 .06 RPM |
GBR_HG00133 | 0 .48 RPM |
GBR_HG00134 | 0 .24 RPM |
GBR_HG00137 | 0 .36 RPM |
GBR_HG00142 | 0 .94 RPM |
GBR_HG00143 | 0 .03 RPM |
TSI_NA20512 | 0 .31 RPM |
TSI_NA20513 | 0 .07 RPM |
TSI_NA20518 | 0 .28 RPM |
TSI_NA20532 | 2 .14 RPM |
TSI_NA20538 | 0 .97 RPM |
TSI_NA20756 | 0 .35 RPM |
TSI_NA20765 | 0 .27 RPM |
TSI_NA20771 | 0 .37 RPM |
TSI_NA20786 | 0 .18 RPM |
TSI_NA20798 | 0 .28 RPM |
YRI_NA18870 | 0 .47 RPM |
YRI_NA18907 | 0 .42 RPM |
YRI_NA18916 | 0 .80 RPM |
YRI_NA19093 | 0 .16 RPM |
YRI_NA19099 | 0 .21 RPM |
YRI_NA19114 | 0 .42 RPM |
YRI_NA19118 | 0 .29 RPM |
YRI_NA19213 | 0 .26 RPM |
YRI_NA19214 | 0 .30 RPM |
YRI_NA19223 | 0 .10 RPM |