RetrogeneDB ID: | retro_hsap_4077 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 8:75515525..75516479(-) | ||
Located in intron of: | ENSG00000254349 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000253341 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PCBP2 | ||
Ensembl ID: | ENSG00000197111 | ||
Aliases: | PCBP2, HNRNPE2, HNRPE2, hnRNP-E2 | ||
Description: | poly(rC) binding protein 2 [Source:HGNC Symbol;Acc:8648] |
Percent Identity: | 94.03 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 0 |
Parental | MDTGVIEGGLNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFK |
M.T.VIEGGLN.TLTIRLLMHGKEVGSIIGKKGESVKKMREESGA.INISEGNCPERIIT.AGP.NA.FK | |
Retrocopy | METSVIEGGLNITLTIRLLMHGKEVGSIIGKKGESVKKMREESGAPINISEGNCPERIITFAGPANAVFK |
Parental | AFAMIIDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPN |
.FAMIIDKLEEDISSSMT.STAA.RPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQV..AGDMLPN | |
Retrocopy | GFAMIIDKLEEDISSSMTSSTAATRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQV*MAGDMLPN |
Parental | STERAITIAGIPQSIIECVKQICVVMLESPPKGVTIPYRPKPSSSPVIFAGGQAYTIQGQYAIPQPDLTK |
STE.AITIAGIPQSIIECVKQICVVMLESPPKGVTIPY..KPSSSPVIFAGGQAYT.QGQ.AIPQPDLT. | |
Retrocopy | STEQAITIAGIPQSIIECVKQICVVMLESPPKGVTIPYQLKPSSSPVIFAGGQAYTLQGQFAIPQPDLTM |
Parental | LHQLAMQQSHFPMTHGNTGFSAGLDASAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPV |
LHQLAMQQSHFPMTHGNTGFSAGLD.SAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPV | |
Retrocopy | LHQLAMQQSHFPMTHGNTGFSAGLDTSAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPV |
Parental | EGSTDRQVTITGSAASISLAQYLINVRLSSETGGMGSS |
EGSTDRQVTITGSAASISLAQYLINVRLSSETGGMGSS | |
Retrocopy | EGSTDRQVTITGSAASISLAQYLINVRLSSETGGMGSS |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 3 .38 RPM | 289 .44 RPM |
bodymap2_adrenal | 2 .17 RPM | 245 .72 RPM |
bodymap2_brain | 0 .61 RPM | 125 .31 RPM |
bodymap2_breast | 2 .96 RPM | 223 .74 RPM |
bodymap2_colon | 1 .99 RPM | 234 .66 RPM |
bodymap2_heart | 1 .20 RPM | 137 .26 RPM |
bodymap2_kidney | 0 .33 RPM | 281 .96 RPM |
bodymap2_liver | 0 .25 RPM | 128 .11 RPM |
bodymap2_lung | 2 .76 RPM | 319 .99 RPM |
bodymap2_lymph_node | 1 .61 RPM | 348 .48 RPM |
bodymap2_ovary | 3 .78 RPM | 291 .60 RPM |
bodymap2_prostate | 2 .06 RPM | 305 .94 RPM |
bodymap2_skeletal_muscle | 2 .62 RPM | 189 .15 RPM |
bodymap2_testis | 2 .26 RPM | 271 .79 RPM |
bodymap2_thyroid | 3 .75 RPM | 224 .98 RPM |
bodymap2_white_blood_cells | 2 .03 RPM | 386 .10 RPM |
TSS No. | TSS Name | TSS expression level (Expr) in TPM range: | ||||
---|---|---|---|---|---|---|
no expression | 0 < Expr ≤ 1 | 1 < Expr ≤ 5 | 5 < Expr ≤ 10 | Expr > 10 | ||
TSS #1 | TSS_186468 | 327 libraries | 591 libraries | 796 libraries | 88 libraries | 27 libraries |
TSS #2 | TSS_186469 | 56 libraries | 13 libraries | 399 libraries | 728 libraries | 633 libraries |
Species | RetrogeneDB ID |
---|---|
Gorilla gorilla | retro_ggor_2734 |
Pongo abelii | retro_pabe_3346 |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 6 .10 RPM |
CEU_NA11843 | 3 .64 RPM |
CEU_NA11930 | 5 .41 RPM |
CEU_NA12004 | 4 .90 RPM |
CEU_NA12400 | 4 .95 RPM |
CEU_NA12751 | 4 .86 RPM |
CEU_NA12760 | 5 .30 RPM |
CEU_NA12827 | 5 .38 RPM |
CEU_NA12872 | 6 .48 RPM |
CEU_NA12873 | 6 .60 RPM |
FIN_HG00183 | 4 .75 RPM |
FIN_HG00277 | 5 .21 RPM |
FIN_HG00315 | 4 .22 RPM |
FIN_HG00321 | 5 .50 RPM |
FIN_HG00328 | 4 .81 RPM |
FIN_HG00338 | 5 .83 RPM |
FIN_HG00349 | 5 .69 RPM |
FIN_HG00375 | 5 .58 RPM |
FIN_HG00377 | 4 .39 RPM |
FIN_HG00378 | 5 .40 RPM |
GBR_HG00099 | 6 .28 RPM |
GBR_HG00111 | 3 .83 RPM |
GBR_HG00114 | 4 .47 RPM |
GBR_HG00119 | 4 .96 RPM |
GBR_HG00131 | 4 .05 RPM |
GBR_HG00133 | 5 .57 RPM |
GBR_HG00134 | 4 .52 RPM |
GBR_HG00137 | 4 .04 RPM |
GBR_HG00142 | 5 .28 RPM |
GBR_HG00143 | 4 .98 RPM |
TSI_NA20512 | 4 .30 RPM |
TSI_NA20513 | 3 .63 RPM |
TSI_NA20518 | 5 .83 RPM |
TSI_NA20532 | 4 .83 RPM |
TSI_NA20538 | 4 .28 RPM |
TSI_NA20756 | 5 .82 RPM |
TSI_NA20765 | 4 .54 RPM |
TSI_NA20771 | 4 .31 RPM |
TSI_NA20786 | 5 .62 RPM |
TSI_NA20798 | 5 .77 RPM |
YRI_NA18870 | 5 .62 RPM |
YRI_NA18907 | 6 .66 RPM |
YRI_NA18916 | 5 .28 RPM |
YRI_NA19093 | 6 .56 RPM |
YRI_NA19099 | 5 .96 RPM |
YRI_NA19114 | 6 .84 RPM |
YRI_NA19118 | 4 .89 RPM |
YRI_NA19213 | 5 .07 RPM |
YRI_NA19214 | 5 .63 RPM |
YRI_NA19223 | 5 .31 RPM |