RetrogeneDB ID: | retro_hsap_2970 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 4:113377079..113378942(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000248697 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | TOX4 | ||
Ensembl ID: | ENSG00000092203 | ||
Aliases: | TOX4, C14orf92, KIAA0737, LCP1, MIG7 | ||
Description: | TOX high mobility group box family member 4 [Source:HGNC Symbol;Acc:20161] |
Percent Identity: | 92.3 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 2 |
Parental | MEFPGGNDNYLTITGPSHPFLSGAETFHTPSLGDEEFEIPPISLDSDPSLAVSDVVGHFDDLADPSSSQD |
ME.PGGNDNYLTITGPSH.FLSGAETFHTPSLGDEEFEIPPISLDSDPSLAVSDVV.HFDDLADPSSSQD | |
Retrocopy | MESPGGNDNYLTITGPSHLFLSGAETFHTPSLGDEEFEIPPISLDSDPSLAVSDVVDHFDDLADPSSSQD |
Parental | GSFSAQYGVQTLDM-PVGMTHGLMEQGG-GLLSGGLTMDLDHSIGTQYSANPPVTIDVPMTDMTSGLMGH |
GS.SAQYGVQTLDM..VGMTHGLMEQGG.GLLSGGL.MDL.HSIGTQYSANPPVTIDV.M.DMTS.LMGH | |
Retrocopy | GSASAQYGVQTLDM>SVGMTHGLMEQGG<GLLSGGLIMDLNHSIGTQYSANPPVTIDVLMIDMTSDLMGH |
Parental | SQLTTIDQSELSSQLGLSLGGGTILPPAQSPEDRLSTTPSPTSSLHEDGVEDFRRQLPSQKTVVVEAGKK |
SQLTT.DQSELS.QLGLSL.GGTILPPAQSPEDR.STTPSPTSSLHE.GVEDF.RQ..SQKTVVVEAGKK | |
Retrocopy | SQLTTTDQSELSFQLGLSLRGGTILPPAQSPEDRISTTPSPTSSLHEVGVEDFWRQISSQKTVVVEAGKK |
Parental | QKAPKKRKKKDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDSLGEEQKQVYKRKTEA |
QK.PKKRKKKDPNEPQKPVSAYALFF.DT.AAIKGQNPNATFGEVSKIVASMWDSLGEEQKQ.YKRKTEA | |
Retrocopy | QKFPKKRKKKDPNEPQKPVSAYALFFPDTRAAIKGQNPNATFGEVSKIVASMWDSLGEEQKQIYKRKTEA |
Parental | AKKEYLKALAAYKDNQECQATVETVELDPAPPSQTPSPPPMATVDPASPAPASIEPPALSPSIVVNSTLS |
AKKEYLK.LAAY.DNQECQATVET.ELDPAPPSQTPSPP.MATVDPASPAPAS.EPP.LSPSIVVNSTLS | |
Retrocopy | AKKEYLKTLAAYEDNQECQATVETAELDPAPPSQTPSPPSMATVDPASPAPASTEPPVLSPSIVVNSTLS |
Parental | SYVANQASSGAGGQPNITKLIITKQMLPSSITMSQGGMVTVIPATVVTSRGLQLGQTSTATIQPSQQAQI |
SYVANQASSGAGGQPNITKLIITKQ.LPSSITMSQGGMVT.I.ATVVTS.GLQL..TSTATIQPSQQAQI | |
Retrocopy | SYVANQASSGAGGQPNITKLIITKQTLPSSITMSQGGMVTAILATVVTSWGLQLDPTSTATIQPSQQAQI |
Parental | VTRSVLQAAAAAAAAASMQLPPPRLQPPPLQQMPQPPTQQQVTILQQPPPLQAMQQPPPQKVRINLQQQP |
VTRSVLQAAAAAA..ASMQLPPPRLQPPPL.QMPQP.TQQQVTILQQPPPLQAMQQPPPQKV.INLQQQ. | |
Retrocopy | VTRSVLQAAAAAATVASMQLPPPRLQPPPL*QMPQPLTQQQVTILQQPPPLQAMQQPPPQKV*INLQQQL |
Parental | PPLQIKSVPLPTLKMQTTLVPPTVESSPERPMNNSPEAHTVEAPSPETICEMITDVVPEVESPSQMDVEL |
PPLQIKSVP..TLKMQTTLVPPTVESSPERPMNNSPEAHTVEA.SPETICEMITDVVPEVES.SQMDVEL | |
Retrocopy | PPLQIKSVPPLTLKMQTTLVPPTVESSPERPMNNSPEAHTVEATSPETICEMITDVVPEVESSSQMDVEL |
Parental | VSGSPVALSPQPRCVRSGCENPPIVSKDWDNEYCSNECVVKHCRDVFLAWVASRNSNTVVFVK |
VSGSPVALSPQPRCV.SGCENPPIVSKDWDNE.CSNECVVKHCRDVFLAWVASRNSNTVVFVK | |
Retrocopy | VSGSPVALSPQPRCVMSGCENPPIVSKDWDNECCSNECVVKHCRDVFLAWVASRNSNTVVFVK |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 82 .93 RPM |
bodymap2_adrenal | 0 .08 RPM | 55 .37 RPM |
bodymap2_brain | 0 .00 RPM | 69 .90 RPM |
bodymap2_breast | 0 .00 RPM | 62 .63 RPM |
bodymap2_colon | 0 .00 RPM | 70 .05 RPM |
bodymap2_heart | 0 .00 RPM | 63 .34 RPM |
bodymap2_kidney | 0 .00 RPM | 56 .77 RPM |
bodymap2_liver | 0 .00 RPM | 28 .29 RPM |
bodymap2_lung | 0 .00 RPM | 56 .35 RPM |
bodymap2_lymph_node | 0 .00 RPM | 58 .27 RPM |
bodymap2_ovary | 0 .00 RPM | 70 .19 RPM |
bodymap2_prostate | 0 .00 RPM | 87 .62 RPM |
bodymap2_skeletal_muscle | 0 .02 RPM | 144 .52 RPM |
bodymap2_testis | 0 .02 RPM | 83 .10 RPM |
bodymap2_thyroid | 0 .00 RPM | 90 .69 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 96 .77 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_2008 |
Pongo abelii | retro_pabe_2463 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000006261 | 1 retrocopy | |
Canis familiaris | ENSCAFG00000005647 | 2 retrocopies | |
Choloepus hoffmanni | ENSCHOG00000000714 | 2 retrocopies | |
Homo sapiens | ENSG00000092203 | 1 retrocopy |
retro_hsap_2970 ,
|
Macropus eugenii | ENSMEUG00000010501 | 1 retrocopy | |
Mustela putorius furo | ENSMPUG00000000181 | 1 retrocopy | |
Mus musculus | ENSMUSG00000016831 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000014556 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000005598 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000006126 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000029203 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .02 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .03 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .00 RPM |
CEU_NA12751 | 0 .02 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .09 RPM |
CEU_NA12872 | 0 .03 RPM |
CEU_NA12873 | 0 .03 RPM |
FIN_HG00183 | 0 .00 RPM |
FIN_HG00277 | 0 .04 RPM |
FIN_HG00315 | 0 .03 RPM |
FIN_HG00321 | 0 .03 RPM |
FIN_HG00328 | 0 .02 RPM |
FIN_HG00338 | 0 .00 RPM |
FIN_HG00349 | 0 .03 RPM |
FIN_HG00375 | 0 .02 RPM |
FIN_HG00377 | 0 .05 RPM |
FIN_HG00378 | 0 .00 RPM |
GBR_HG00099 | 0 .03 RPM |
GBR_HG00111 | 0 .00 RPM |
GBR_HG00114 | 0 .00 RPM |
GBR_HG00119 | 0 .00 RPM |
GBR_HG00131 | 0 .00 RPM |
GBR_HG00133 | 0 .05 RPM |
GBR_HG00134 | 0 .00 RPM |
GBR_HG00137 | 0 .03 RPM |
GBR_HG00142 | 0 .06 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .00 RPM |
TSI_NA20518 | 0 .03 RPM |
TSI_NA20532 | 0 .00 RPM |
TSI_NA20538 | 0 .00 RPM |
TSI_NA20756 | 0 .00 RPM |
TSI_NA20765 | 0 .08 RPM |
TSI_NA20771 | 0 .06 RPM |
TSI_NA20786 | 0 .03 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .03 RPM |
YRI_NA18907 | 0 .07 RPM |
YRI_NA18916 | 0 .02 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .00 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .06 RPM |
YRI_NA19213 | 0 .05 RPM |
YRI_NA19214 | 0 .10 RPM |
YRI_NA19223 | 0 .06 RPM |