RetrogeneDB ID: | retro_hsap_3670 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 6:138026565..138028338(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000220412 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PTPN11 | ||
Ensembl ID: | ENSG00000179295 | ||
Aliases: | PTPN11, BPTP3, CFC, NS1, PTP-1D, PTP2C, SH-PTP2, SH-PTP3, SHP2 | ||
Description: | protein tyrosine phosphatase, non-receptor type 11 [Source:HGNC Symbol;Acc:9644] |
Percent Identity: | 83.87 % |
Parental protein coverage: | 99.33 % |
Number of stop codons detected: | 3 |
Number of frameshifts detected | 2 |
Parental | RRWFHPNITGVEAE-NLLLTRGVDGSFLARPSKSNPGDFTLSVRRNGAVTHIKIQNTGDYYDLYGG-EKF |
R.WFHPNI.GVEAE.NLL.TRGVDGSFLARPSKS.PGDFT.S.RRN.AVTHIKIQNTGDY.D..GG.EKF | |
Retrocopy | RQWFHPNISGVEAE>NLLSTRGVDGSFLARPSKSTPGDFTCSIRRNRAVTHIKIQNTGDY*DPFGG<EKF |
Parental | ATLAELVQYYMEHHGQLKEKNGDVIELKYPLNCADPTSERWFHGHLSGKEAEKLLTEKGKHGSFLVRESQ |
AT.AELVQYYMEHH.QLKEKNGDV.ELKYPLNCADP.SERWFHGHL.GKEAEKL.TEKGKHGSFL.RESQ | |
Retrocopy | ATSAELVQYYMEHHRQLKEKNGDVVELKYPLNCADPASERWFHGHLFGKEAEKL-TEKGKHGSFLIRESQ |
Parental | SHPGDFVLSVRTGDDKGESNDGKSKVTHVMIRCQELKYDVGGGERFDSLTDLVEHYKKNPMVETLGTVLQ |
SHPGDFVLSVRT.DDK.ESND.K.KVTHVMIRCQELKYDVGGG.RFDSLTDLVEHYKKNPM.ETLGTVL. | |
Retrocopy | SHPGDFVLSVRTSDDKKESNDSKCKVTHVMIRCQELKYDVGGGKRFDSLTDLVEHYKKNPMLETLGTVLR |
Parental | LKQPLNTTRINAAEIESRVRELSKLAETTDKVKQGFWEEFETLQQQECKLLYSRKEGQRQENKNKNRYKN |
LKQPLN.TRINAAEIESRV.ELSKLAETTDKV.QGFWEEFETLQ.QECKLLYSRKEGQRQ.......... | |
Retrocopy | LKQPLNMTRINAAEIESRV*ELSKLAETTDKVQQGFWEEFETLQPQECKLLYSRKEGQRQXXXXXXXXXX |
Parental | ILPFDHTRVVLHDGDPNEPVSDYINANIIMPEFETKCNNSKPKKSYIATQGCLQNTVNDFWRMVFQENSR |
.LPFDHTRVVLHD.DPNEP.SDYI.AN.IMPEFETKCNNSKPKKS.IATQGCLQN.VNDF..MVFQENS. | |
Retrocopy | XLPFDHTRVVLHDDDPNEPISDYISANTIMPEFETKCNNSKPKKSCIATQGCLQNMVNDFCWMVFQENSQ |
Parental | VIVMTTKEVERGKSKCVKYWPDEYALKEYGVMRVRNVKESAAHDYTLRELKLSKVGQ----GNTERTVWQ |
VIVMT.KE.ERGKSKCVKYW..E.AL.EYGVM.VRN.K.SA.HDY.LRELK.SKVGQ....GN..RTVWQ | |
Retrocopy | VIVMTMKEMERGKSKCVKYWSEEDALQEYGVMCVRNIKGSAVHDYMLRELKFSKVGQAVLQGNMARTVWQ |
Parental | YHFRTWPDHGVPSDPGGVLDFLEEVHHKQESIMDAGPVVVHCSAGIGRTGTFIVIDILIDIIREKGVDCD |
YHFRT.PDHGVPSDPGG.LDFLEEVHHKQESIMDAG.VVVHCSAGIG.TG.FIVI..LIDIIREKG..C. | |
Retrocopy | YHFRT*PDHGVPSDPGGMLDFLEEVHHKQESIMDAGLVVVHCSAGIGHTGRFIVINSLIDIIREKGINCN |
Parental | IDVPKTIQMVRSQRSGMVQTEAQYRFIYMAVQHYIETLQRRIEEEQKSKRKGHEYTNIKYSLADQTSGDQ |
ID..KTI..V.SQRSGM.QTEAQYRFIYMAVQHYIETLQ..IEEEQKSKRKGHEY.NIKYSLADQTSG.Q | |
Retrocopy | IDLLKTIHTVQSQRSGMAQTEAQYRFIYMAVQHYIETLQHKIEEEQKSKRKGHEYKNIKYSLADQTSGAQ |
Parental | SPLPPCTPTPPCAEMREDSARVYENVGLMQQQKSF |
SPLPPCT..PPCAEMRED.A.V.ENV.L..QQKSF | |
Retrocopy | SPLPPCTAAPPCAEMREDNAGVCENVDLI-QQKSF |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 263 .94 RPM |
bodymap2_adrenal | 0 .25 RPM | 132 .33 RPM |
bodymap2_brain | 0 .00 RPM | 394 .29 RPM |
bodymap2_breast | 0 .00 RPM | 407 .53 RPM |
bodymap2_colon | 0 .00 RPM | 244 .85 RPM |
bodymap2_heart | 0 .00 RPM | 230 .25 RPM |
bodymap2_kidney | 0 .00 RPM | 164 .18 RPM |
bodymap2_liver | 0 .00 RPM | 136 .31 RPM |
bodymap2_lung | 0 .12 RPM | 155 .10 RPM |
bodymap2_lymph_node | 0 .00 RPM | 127 .17 RPM |
bodymap2_ovary | 0 .08 RPM | 141 .82 RPM |
bodymap2_prostate | 0 .00 RPM | 171 .56 RPM |
bodymap2_skeletal_muscle | 0 .02 RPM | 276 .40 RPM |
bodymap2_testis | 0 .79 RPM | 163 .74 RPM |
bodymap2_thyroid | 0 .00 RPM | 231 .81 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 123 .01 RPM |
Species | RetrogeneDB ID |
---|---|
Macaca mulatta | retro_mmul_1792 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Callithrix jacchus | ENSCJAG00000012464 | 1 retrocopy | |
Homo sapiens | ENSG00000175354 | 2 retrocopies | |
Homo sapiens | ENSG00000179295 | 5 retrocopies | |
Gorilla gorilla | ENSGGOG00000010689 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000013253 | 4 retrocopies | |
Nomascus leucogenys | ENSNLEG00000000078 | 5 retrocopies | |
Pongo abelii | ENSPPYG00000004976 | 4 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .09 RPM |
CEU_NA11843 | 0 .03 RPM |
CEU_NA11930 | 0 .23 RPM |
CEU_NA12004 | 0 .04 RPM |
CEU_NA12400 | 0 .11 RPM |
CEU_NA12751 | 0 .05 RPM |
CEU_NA12760 | 0 .09 RPM |
CEU_NA12827 | 0 .14 RPM |
CEU_NA12872 | 0 .08 RPM |
CEU_NA12873 | 0 .13 RPM |
FIN_HG00183 | 0 .16 RPM |
FIN_HG00277 | 0 .11 RPM |
FIN_HG00315 | 0 .03 RPM |
FIN_HG00321 | 0 .39 RPM |
FIN_HG00328 | 0 .21 RPM |
FIN_HG00338 | 0 .11 RPM |
FIN_HG00349 | 0 .03 RPM |
FIN_HG00375 | 0 .02 RPM |
FIN_HG00377 | 0 .03 RPM |
FIN_HG00378 | 0 .13 RPM |
GBR_HG00099 | 0 .06 RPM |
GBR_HG00111 | 0 .06 RPM |
GBR_HG00114 | 0 .05 RPM |
GBR_HG00119 | 0 .10 RPM |
GBR_HG00131 | 0 .14 RPM |
GBR_HG00133 | 0 .02 RPM |
GBR_HG00134 | 0 .02 RPM |
GBR_HG00137 | 0 .14 RPM |
GBR_HG00142 | 0 .06 RPM |
GBR_HG00143 | 0 .10 RPM |
TSI_NA20512 | 0 .03 RPM |
TSI_NA20513 | 0 .22 RPM |
TSI_NA20518 | 0 .06 RPM |
TSI_NA20532 | 0 .03 RPM |
TSI_NA20538 | 0 .14 RPM |
TSI_NA20756 | 0 .03 RPM |
TSI_NA20765 | 0 .04 RPM |
TSI_NA20771 | 0 .09 RPM |
TSI_NA20786 | 0 .08 RPM |
TSI_NA20798 | 0 .06 RPM |
YRI_NA18870 | 0 .10 RPM |
YRI_NA18907 | 0 .03 RPM |
YRI_NA18916 | 0 .17 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .08 RPM |
YRI_NA19114 | 0 .08 RPM |
YRI_NA19118 | 0 .12 RPM |
YRI_NA19213 | 0 .12 RPM |
YRI_NA19214 | 0 .10 RPM |
YRI_NA19223 | 0 .04 RPM |