RetrogeneDB ID: | retro_hsap_497 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 1:204497975..204498820(-) | ||
Located in intron of: | ENSG00000198625 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000236779 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PEF1 | ||
Ensembl ID: | ENSG00000162517 | ||
Aliases: | PEF1, ABP32, PEF1A | ||
Description: | penta-EF-hand domain containing 1 [Source:HGNC Symbol;Acc:30009] |
Percent Identity: | 83.28 % |
Parental protein coverage: | 99.65 % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 3 |
Parental | ASYPYRQGCPGAAGQAPGA-PPGSYYP-GPPNSGGQYGSGLPPGGGYGGPAPGGPYGPPAGGGPYGHPNP |
ASY.Y..GCPG.AGQAPG..P.G...P.....SGGQYGS.LPPGGGYGGPAPGGPYGPPAG.GPYGH.NP | |
Retrocopy | ASYLYGRGCPGDAGQAPGT<PSG*LLPWXXXSSGGQYGSVLPPGGGYGGPAPGGPYGPPAGRGPYGHLNP |
Parental | GMFPSGTPGGPYGGAAPGGPYGQPPPSSYGAQQPGLYGQGGAPPNVDPEAYSWFQSV-DSDHSGYISMKE |
GMFPSGTPGGP..G.APGGPYGQPPP.SYGAQQP...GQGG.PPN.D.EAYSWFQSV.DSDHSG.ISMKE | |
Retrocopy | GMFPSGTPGGPNDGTAPGGPYGQPPPNSYGAQQPRPHGQGGSPPNMD-EAYSWFQSV<DSDHSGFISMKE |
Parental | LKQALVNCNWSSFNDETCLMMINMFDKTKSGRIDVYGFSALWKFIQQWKNLFQQ-YDRDRSGSISYTELQ |
.KQALVNCNWS.FNDETCLMMINMFDKT.SG.I.VYGFSALWKFIQQWK.LFQQ.YD.D.SGSISYTELQ | |
Retrocopy | VKQALVNCNWSLFNDETCLMMINMFDKT*SGHINVYGFSALWKFIQQWKQLFQQ>YDWDNSGSISYTELQ |
Parental | QALSQMGYNLSPQFTQLLVSRYCPRSANPAMQLDRFIQVCTQLQVLTEAFREKDTAVQGNIRLSFEDFVT |
QALSQMGYNLSPQFTQLLVS.YCPRS.NPA.QLD.FIQVCTQLQ..TEAFREKDTAVQGNIRLSF.D.VT | |
Retrocopy | QALSQMGYNLSPQFTQLLVSSYCPRSVNPARQLDCFIQVCTQLQMPTEAFREKDTAVQGNIRLSFKDVVT |
Parental | MTASRML |
MTA.RML | |
Retrocopy | MTA-RML |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .06 RPM | 43 .59 RPM |
bodymap2_adrenal | 0 .25 RPM | 46 .47 RPM |
bodymap2_brain | 0 .02 RPM | 31 .20 RPM |
bodymap2_breast | 0 .00 RPM | 36 .15 RPM |
bodymap2_colon | 0 .04 RPM | 38 .40 RPM |
bodymap2_heart | 0 .00 RPM | 18 .48 RPM |
bodymap2_kidney | 0 .00 RPM | 51 .49 RPM |
bodymap2_liver | 0 .00 RPM | 28 .01 RPM |
bodymap2_lung | 0 .00 RPM | 64 .59 RPM |
bodymap2_lymph_node | 0 .00 RPM | 45 .85 RPM |
bodymap2_ovary | 0 .06 RPM | 52 .32 RPM |
bodymap2_prostate | 0 .00 RPM | 63 .96 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 36 .90 RPM |
bodymap2_testis | 0 .06 RPM | 43 .10 RPM |
bodymap2_thyroid | 0 .02 RPM | 84 .78 RPM |
bodymap2_white_blood_cells | 0 .02 RPM | 47 .53 RPM |
ENCODE library ID | Target | ChIP-Seq Peak coordinates |
---|---|---|
ENCFF002CHO | POLR2A | 1:204498332..204498603 |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_375 |
Gorilla gorilla | retro_ggor_464 |
Pongo abelii | retro_pabe_238 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Callithrix jacchus | ENSCJAG00000006355 | 1 retrocopy | |
Homo sapiens | ENSG00000162517 | 1 retrocopy |
retro_hsap_497 ,
|
Gorilla gorilla | ENSGGOG00000015897 | 1 retrocopy | |
Macropus eugenii | ENSMEUG00000014458 | 1 retrocopy | |
Microcebus murinus | ENSMICG00000001374 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000023397 | 1 retrocopy | |
Monodelphis domestica | ENSMODG00000017573 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000001979 | 1 retrocopy | |
Oryctolagus cuniculus | ENSOCUG00000005744 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000001611 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000000463 | 1 retrocopy | |
Rattus norvegicus | ENSRNOG00000013972 | 2 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .15 RPM |
CEU_NA11843 | 0 .09 RPM |
CEU_NA11930 | 0 .10 RPM |
CEU_NA12004 | 0 .04 RPM |
CEU_NA12400 | 0 .07 RPM |
CEU_NA12751 | 0 .05 RPM |
CEU_NA12760 | 0 .04 RPM |
CEU_NA12827 | 0 .14 RPM |
CEU_NA12872 | 0 .00 RPM |
CEU_NA12873 | 0 .10 RPM |
FIN_HG00183 | 0 .11 RPM |
FIN_HG00277 | 0 .15 RPM |
FIN_HG00315 | 0 .06 RPM |
FIN_HG00321 | 0 .03 RPM |
FIN_HG00328 | 0 .07 RPM |
FIN_HG00338 | 0 .06 RPM |
FIN_HG00349 | 0 .03 RPM |
FIN_HG00375 | 0 .07 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .02 RPM |
GBR_HG00099 | 0 .09 RPM |
GBR_HG00111 | 0 .06 RPM |
GBR_HG00114 | 0 .11 RPM |
GBR_HG00119 | 0 .10 RPM |
GBR_HG00131 | 0 .14 RPM |
GBR_HG00133 | 0 .19 RPM |
GBR_HG00134 | 0 .07 RPM |
GBR_HG00137 | 0 .08 RPM |
GBR_HG00142 | 0 .03 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .24 RPM |
TSI_NA20518 | 0 .14 RPM |
TSI_NA20532 | 0 .10 RPM |
TSI_NA20538 | 0 .09 RPM |
TSI_NA20756 | 0 .00 RPM |
TSI_NA20765 | 0 .10 RPM |
TSI_NA20771 | 0 .03 RPM |
TSI_NA20786 | 0 .08 RPM |
TSI_NA20798 | 0 .03 RPM |
YRI_NA18870 | 0 .17 RPM |
YRI_NA18907 | 0 .03 RPM |
YRI_NA18916 | 0 .02 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .03 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .06 RPM |
YRI_NA19213 | 0 .05 RPM |
YRI_NA19214 | 0 .15 RPM |
YRI_NA19223 | 0 .16 RPM |