RetrogeneDB ID: | retro_hsap_2395 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 2:231437882..231438626(-) | ||
Located in intron of: | ENSG00000235419 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000183022 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | TPM3 | ||
Ensembl ID: | ENSG00000143549 | ||
Aliases: | TPM3, CAPM1, CFTD, HEL-189, HEL-S-82p, NEM1, OK/SW-cl.5, TM-5, TM3, TM30, TM30nm, TM5, TPMsk3, TRK, hscp30 | ||
Description: | tropomyosin 3 [Source:HGNC Symbol;Acc:12012] |
Percent Identity: | 92.34 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 0 |
Parental | MAGITTIEAVKRKIQVLQQQADDAEERAERLQREVEGERRAREQAEAEVASLNRRIQLVEEELDRAQERL |
.A.ITTIEAVK.KIQVLQQQADDAEERAE.LQREVEGER.ARE.AEAEVASLNRRIQLVEEELD.AQE.L | |
Retrocopy | VAEITTIEAVKCKIQVLQQQADDAEERAEHLQREVEGERQAREEAEAEVASLNRRIQLVEEELDHAQEYL |
Parental | ATALQKLEEAEKAADESERGMKVIENRALKDEEKMELQEIQLKEAKHIAEEADRKYEEVARKLVIIEGDL |
ATALQKLEEAEKAADESERGMKV.ENRALKDEEKMELQEI.L.EAKHIAEEADRKYEEVA.KLVIIEGDL | |
Retrocopy | ATALQKLEEAEKAADESERGMKVVENRALKDEEKMELQEI*LQEAKHIAEEADRKYEEVAHKLVIIEGDL |
Parental | ERTEERAELAESRCREMDEQIRLMDQNLKCLSAAEEKYSQKEDKYEEEIKILTDKLKEAETRAEFAERSV |
E.TEERAEL.ESRC.EMDEQIRLMDQNLKCLSAAEE.YSQKEDKYEEEIKILTDKLKEAET.AEFAERSV | |
Retrocopy | EGTEERAELGESRCQEMDEQIRLMDQNLKCLSAAEEMYSQKEDKYEEEIKILTDKLKEAETSAEFAERSV |
Parental | AKLEKTIDDLEDKLKCTKEEHLCTQRMLDQTLLDLNEM |
AKLEKTIDDLEDKLK.TKEEHLCTQRMLDQTL.DLNEM | |
Retrocopy | AKLEKTIDDLEDKLKRTKEEHLCTQRMLDQTLIDLNEM |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .02 RPM | 404 .93 RPM |
bodymap2_adrenal | 0 .02 RPM | 369 .51 RPM |
bodymap2_brain | 0 .00 RPM | 214 .17 RPM |
bodymap2_breast | 0 .08 RPM | 275 .26 RPM |
bodymap2_colon | 0 .00 RPM | 177 .60 RPM |
bodymap2_heart | 0 .00 RPM | 174 .40 RPM |
bodymap2_kidney | 0 .02 RPM | 210 .94 RPM |
bodymap2_liver | 0 .00 RPM | 92 .56 RPM |
bodymap2_lung | 0 .00 RPM | 466 .61 RPM |
bodymap2_lymph_node | 0 .00 RPM | 264 .49 RPM |
bodymap2_ovary | 0 .02 RPM | 156 .91 RPM |
bodymap2_prostate | 0 .00 RPM | 137 .16 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 495 .87 RPM |
bodymap2_testis | 0 .04 RPM | 238 .91 RPM |
bodymap2_thyroid | 0 .00 RPM | 446 .09 RPM |
bodymap2_white_blood_cells | 0 .02 RPM | 781 .04 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000011877 | 2 retrocopies | |
Bos taurus | ENSBTAG00000033217 | 3 retrocopies | |
Canis familiaris | ENSCAFG00000017311 | 4 retrocopies | |
Cavia porcellus | ENSCPOG00000007279 | 1 retrocopy | |
Dasypus novemcinctus | ENSDNOG00000019156 | 7 retrocopies | |
Equus caballus | ENSECAG00000010942 | 1 retrocopy | |
Felis catus | ENSFCAG00000012596 | 1 retrocopy | |
Homo sapiens | ENSG00000143549 | 9 retrocopies |
retro_hsap_1482, retro_hsap_1639, retro_hsap_2001, retro_hsap_2011, retro_hsap_2012, retro_hsap_2237, retro_hsap_2395 , retro_hsap_3711, retro_hsap_3893,
|
Homo sapiens | ENSG00000167460 | 2 retrocopies | |
Myotis lucifugus | ENSMLUG00000013331 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000010805 | 10 retrocopies | |
Mustela putorius furo | ENSMPUG00000007875 | 1 retrocopy | |
Mus musculus | ENSMUSG00000027940 | 1 retrocopy | |
Oryctolagus cuniculus | ENSOCUG00000011821 | 2 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .11 RPM |
CEU_NA11843 | 0 .48 RPM |
CEU_NA11930 | 0 .68 RPM |
CEU_NA12004 | 0 .23 RPM |
CEU_NA12400 | 0 .04 RPM |
CEU_NA12751 | 1 .51 RPM |
CEU_NA12760 | 0 .85 RPM |
CEU_NA12827 | 0 .19 RPM |
CEU_NA12872 | 0 .90 RPM |
CEU_NA12873 | 0 .64 RPM |
FIN_HG00183 | 1 .87 RPM |
FIN_HG00277 | 0 .15 RPM |
FIN_HG00315 | 0 .44 RPM |
FIN_HG00321 | 0 .06 RPM |
FIN_HG00328 | 0 .43 RPM |
FIN_HG00338 | 0 .09 RPM |
FIN_HG00349 | 0 .43 RPM |
FIN_HG00375 | 0 .88 RPM |
FIN_HG00377 | 1 .66 RPM |
FIN_HG00378 | 0 .23 RPM |
GBR_HG00099 | 0 .09 RPM |
GBR_HG00111 | 0 .21 RPM |
GBR_HG00114 | 0 .05 RPM |
GBR_HG00119 | 0 .31 RPM |
GBR_HG00131 | 0 .17 RPM |
GBR_HG00133 | 0 .92 RPM |
GBR_HG00134 | 0 .24 RPM |
GBR_HG00137 | 0 .27 RPM |
GBR_HG00142 | 0 .06 RPM |
GBR_HG00143 | 0 .06 RPM |
TSI_NA20512 | 0 .06 RPM |
TSI_NA20513 | 0 .12 RPM |
TSI_NA20518 | 0 .19 RPM |
TSI_NA20532 | 0 .34 RPM |
TSI_NA20538 | 1 .57 RPM |
TSI_NA20756 | 0 .32 RPM |
TSI_NA20765 | 0 .15 RPM |
TSI_NA20771 | 0 .28 RPM |
TSI_NA20786 | 0 .10 RPM |
TSI_NA20798 | 0 .19 RPM |
YRI_NA18870 | 0 .14 RPM |
YRI_NA18907 | 0 .07 RPM |
YRI_NA18916 | 1 .39 RPM |
YRI_NA19093 | 0 .18 RPM |
YRI_NA19099 | 0 .16 RPM |
YRI_NA19114 | 0 .31 RPM |
YRI_NA19118 | 0 .15 RPM |
YRI_NA19213 | 1 .00 RPM |
YRI_NA19214 | 0 .37 RPM |
YRI_NA19223 | 0 .22 RPM |