RetrogeneDB ID: | retro_hsap_2360 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 2:187866605..187867665(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000226553 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | IMPDH1 | ||
Ensembl ID: | ENSG00000106348 | ||
Aliases: | IMPDH1, IMPD, IMPD1, LCA11, RP10, sWSS2608 | ||
Description: | IMP (inosine 5'-monophosphate) dehydrogenase 1 [Source:HGNC Symbol;Acc:6052] |
Percent Identity: | 79.83 % |
Parental protein coverage: | 60.95 % |
Number of stop codons detected: | 4 |
Number of frameshifts detected | 3 |
Parental | GIVTSRDIDFLAEKD-HTTLLSEVMTPRIELVVAPAGVTLKEANEILQRSKKGKLPIVND-CDELVAIIA |
G...S.........D..T.LL.....P....V.APAG..LKEANEILQ.SKKGKL..VND..DELVA.I. | |
Retrocopy | GTIGSKLVGIVTSRD>STFLLRRTTPP--SSVLAPAGLMLKEANEILQHSKKGKLSFVND<SDELVAMIT |
Parental | RTDLKKNRDYPLASKDSQKQLLCGAAVGTREDDKYRLDLLTQAGVDVIVLDSSQGNSVYQIAMVHYIKQK |
.TDLKKNRDYPLASKDS.KQLL.GAAVGT.EDDKYRLDLLTQAGVDV.VLD.SQGNSVYQIA.VHYIKQK | |
Retrocopy | CTDLKKNRDYPLASKDSHKQLLRGAAVGTPEDDKYRLDLLTQAGVDVVVLDLSQGNSVYQIATVHYIKQK |
Parental | YPHLQVIGGNVVTAAQAKNLIDAGVDGLRVGMGCGSICITQEVMACGRPQGTAVYKVAEYARRFGVPIIA |
YPHLQVIG....TAAQAKNLIDA.VDGLR.GMGCGSICITQEVMACG.PQGTA.YKVAEYA..FGV.IIA | |
Retrocopy | YPHLQVIG---MTAAQAKNLIDAAVDGLRIGMGCGSICITQEVMACGGPQGTALYKVAEYALCFGVSIIA |
Parental | DGGIQTVGHVVKALALGASTVMMGSLLAATTEAPGEYFFSDGVRLKKYRGMGSLDAMEKSSSSQKRYFSE |
DGGI.TVGHVVKALALGASTVMMGSLLA.TT..PGEYFFSDGVRLKKY.GMGSLDAMEKSSSSQK.Y.S. | |
Retrocopy | DGGI*TVGHVVKALALGASTVMMGSLLATTT*DPGEYFFSDGVRLKKYQGMGSLDAMEKSSSSQK*YVSK |
Parental | GDKVKIAQGVSGSIQDKGSIQKFVPYLIAGIQHGCQD-IGARSLSVLRSMMYSGELKFEKRTMSAQIEGG |
G.KVKIAQGV.GSIQDKGSI.KFV.YLIAGIQ.GCQD..G.RSLSVL.SMMYSGEL.FEK.TMSAQI.GG | |
Retrocopy | GNKVKIAQGVLGSIQDKGSIHKFVSYLIAGIQPGCQD>LG-RSLSVLQSMMYSGELNFEKQTMSAQIKGG |
Parental | VHGLHSYEKRLY |
VHGLHS.EKRLY | |
Retrocopy | VHGLHS*EKRLY |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 54 .51 RPM |
bodymap2_adrenal | 0 .00 RPM | 33 .80 RPM |
bodymap2_brain | 0 .00 RPM | 6 .45 RPM |
bodymap2_breast | 0 .00 RPM | 24 .55 RPM |
bodymap2_colon | 0 .00 RPM | 23 .28 RPM |
bodymap2_heart | 0 .00 RPM | 11 .10 RPM |
bodymap2_kidney | 0 .00 RPM | 12 .92 RPM |
bodymap2_liver | 0 .00 RPM | 2 .60 RPM |
bodymap2_lung | 0 .00 RPM | 18 .14 RPM |
bodymap2_lymph_node | 0 .00 RPM | 42 .47 RPM |
bodymap2_ovary | 0 .00 RPM | 24 .71 RPM |
bodymap2_prostate | 0 .00 RPM | 22 .01 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 1 .29 RPM |
bodymap2_testis | 0 .04 RPM | 17 .72 RPM |
bodymap2_thyroid | 0 .00 RPM | 8 .32 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 90 .88 RPM |
ENCODE library ID | Target | ChIP-Seq Peak coordinates |
---|---|---|
ENCFF002CMI | POLR2A | 2:187867800..187868353 |
ENCFF002CXM | POLR2A | 2:187867777..187868267 |
ENCFF002CXN | POLR2A | 2:187867772..187868268 |
ENCFF002CXO | POLR2A | 2:187867939..187868363 |
ENCFF002CXP | POLR2A | 2:187867828..187868308 |
ENCFF002CXR | POLR2A | 2:187867946..187868232 |
ENCFF002DBE | POLR2A | 2:187867925..187868421 |
Species | RetrogeneDB ID |
---|---|
Pongo abelii | retro_pabe_2133 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Callithrix jacchus | ENSCJAG00000017770 | 1 retrocopy | |
Homo sapiens | ENSG00000106348 | 7 retrocopies |
retro_hsap_2360 , retro_hsap_2368, retro_hsap_2608, retro_hsap_3797, retro_hsap_4005, retro_hsap_4247, retro_hsap_4808,
|
Homo sapiens | ENSG00000178035 | 1 retrocopy | |
Gorilla gorilla | ENSGGOG00000003963 | 6 retrocopies | |
Macropus eugenii | ENSMEUG00000016082 | 2 retrocopies | |
Macaca mulatta | ENSMMUG00000014509 | 2 retrocopies | |
Nomascus leucogenys | ENSNLEG00000012341 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000017976 | 7 retrocopies | |
Pan troglodytes | ENSPTRG00000019660 | 7 retrocopies |
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 .00 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 .00 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 |