RetrogeneDB ID: | retro_hsap_2401 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 2:234774782..234776003(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000224287 | |
Aliases: | MSL3P1, MSL3L2 | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | MSL3 | ||
Ensembl ID: | ENSG00000005302 | ||
Aliases: | MSL3, MSL3L1 | ||
Description: | male-specific lethal 3 homolog (Drosophila) [Source:HGNC Symbol;Acc:7370] |
Percent Identity: | 87.75 % |
Parental protein coverage: | 80.16 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | LKGLPTEEKDENDENSLSSSSDCSENKDEEISEESDIEEKTEVKEEPELQTRREMEERTITIEIPEVLKK |
LKGL..EEK.ENDENSLSSSSD.SE.KDE.ISEE.DIEEKTEVKEEPELQT.REMEERT.T.EIPEVLK. | |
Retrocopy | LKGLSIEEKNENDENSLSSSSDSSEDKDEKISEECDIEEKTEVKEEPELQTKREMEERTVTLEIPEVLKR |
Parental | QLEDDCYYINRRKRLVKLPCQTNIITILESYVKHFAINAAFSANERPRHHHVMPHANMNVHYIPAEKNVD |
QLEDDCYYINRRKRLV.LPC.TNIITILESYVKHFAI.AAFSANERPRHHH.MPHA.MNV.YIPAEKN.D | |
Retrocopy | QLEDDCYYINRRKRLVQLPCHTNIITILESYVKHFAISAAFSANERPRHHHAMPHASMNVPYIPAEKNID |
Parental | LCKEMVDGLRITFDYTLPLVLLYPYEQAQYKKVTSSKFFLPIKESATSTNRSQEELSPSPPLLNPSTPQS |
LCKEMVDGLRITFDYTLPLVLLYPYEQAQYKKVT.SK.FL.IKESAT.TNRSQE.LSPS..LLNPS.PQS | |
Retrocopy | LCKEMVDGLRITFDYTLPLVLLYPYEQAQYKKVTASKVFLAIKESATNTNRSQEKLSPSLRLLNPSRPQS |
Parental | TESQPTTGEPATPKRRKAEPEALQSLRRSTRHSANCDRLSESSASPQPKRRQQDTSASMPKLFLHLEKKT |
TESQ.T.GEPATPKRRKAEP.A.QSLRRS..H.ANCDRLS.SS.SPQPKR.QQD.S.S.PKLFLHLEKKT | |
Retrocopy | TESQSTSGEPATPKRRKAEPQAVQSLRRSSPHTANCDRLSKSSTSPQPKRWQQDMSTSVPKLFLHLEKKT |
Parental | PVHSRSSSPIPLTPSKEGSAVFAGFEGRRTNEINEVLSWKLVPDNYPPGDQPPPPSYIYGAQHLLRLFVK |
PVHSRSSSP..LTPS.EGS.VFAGFEGRRTNEINEVLSWKLVPDNYPPGDQPPPPSYIYGAQHLLRLFVK | |
Retrocopy | PVHSRSSSP-TLTPSQEGSPVFAGFEGRRTNEINEVLSWKLVPDNYPPGDQPPPPSYIYGAQHLLRLFVK |
Parental | LPEILGKMSFSEKNLKALLKHFDLFLRFLAEYHDDFFPESAYVAACEAHYSTKNPRAI |
LPEILGKMSF.EKNLKALLKHFDLF.RFLAEYHDDFFPESAYVAA.E.HYST.NP.A. | |
Retrocopy | LPEILGKMSFTEKNLKALLKHFDLFVRFLAEYHDDFFPESAYVAASEVHYSTRNPQAV |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .44 RPM | 20 .45 RPM |
bodymap2_adrenal | 0 .45 RPM | 52 .24 RPM |
bodymap2_brain | 0 .54 RPM | 23 .56 RPM |
bodymap2_breast | 1 .87 RPM | 26 .30 RPM |
bodymap2_colon | 0 .39 RPM | 27 .57 RPM |
bodymap2_heart | 0 .48 RPM | 13 .83 RPM |
bodymap2_kidney | 1 .03 RPM | 21 .88 RPM |
bodymap2_liver | 1 .42 RPM | 9 .89 RPM |
bodymap2_lung | 0 .60 RPM | 24 .05 RPM |
bodymap2_lymph_node | 0 .24 RPM | 83 .35 RPM |
bodymap2_ovary | 0 .64 RPM | 26 .51 RPM |
bodymap2_prostate | 2 .77 RPM | 23 .61 RPM |
bodymap2_skeletal_muscle | 0 .11 RPM | 28 .43 RPM |
bodymap2_testis | 24 .43 RPM | 52 .92 RPM |
bodymap2_thyroid | 0 .96 RPM | 25 .10 RPM |
bodymap2_white_blood_cells | 1 .52 RPM | 83 .73 RPM |
ENCODE library ID | Target | ChIP-Seq Peak coordinates |
---|---|---|
ENCFF002CFW | POLR2A | 2:234776792..234777168 |
ENCFF002CFX | POLR2A | 2:234776803..234777165 |
ENCFF002CHO | POLR2A | 2:234776750..234777173 |
ENCFF002CIH | POLR2A | 2:234776840..234776995 |
ENCFF002CJE | POLR2A | 2:234776840..234777147 |
ENCFF002CJZ | POLR2A | 2:234776808..234777152 |
ENCFF002CLM | POLR2A | 2:234776695..234777235 |
ENCFF002CMI | POLR2A | 2:234776796..234777188 |
ENCFF002COJ | POLR2A | 2:234776763..234777199 |
ENCFF002CPG | POLR2A | 2:234776722..234777212 |
ENCFF002CQA | POLR2A | 2:234776842..234777064 |
ENCFF002CQC | POLR2A | 2:234776761..234777241 |
ENCFF002CQE | POLR2A | 2:234776923..234777074 |
ENCFF002CQG | POLR2A | 2:234776866..234777030 |
ENCFF002CQI | POLR2A | 2:234776762..234777198 |
ENCFF002CQK | POLR2A | 2:234776812..234777159 |
ENCFF002CQM | POLR2A | 2:234776887..234777132 |
ENCFF002CQO | POLR2A | 2:234776796..234777153 |
ENCFF002CRK | POLR2A | 2:234776656..234777180 |
ENCFF002CSY | POLR2A | 2:234776755..234777155 |
ENCFF002CXM | POLR2A | 2:234776709..234777199 |
ENCFF002CXN | POLR2A | 2:234776699..234777195 |
ENCFF002CXO | POLR2A | 2:234776779..234777203 |
ENCFF002CXP | POLR2A | 2:234776745..234777225 |
ENCFF002CXR | POLR2A | 2:234776903..234777080 |
ENCFF002CZC | POLR2A | 2:234776919..234777077 |
ENCFF002CZD | POLR2A | 2:234776744..234777254 |
ENCFF002CZW | POLR2A | 2:234776567..234777317 |
ENCFF002DAE | POLR2A | 2:234776837..234777147 |
ENCFF002DAV | POLR2A | 2:234776673..234777217 |
ENCFF002DBB | POLR2A | 2:234776907..234777107 |
ENCFF002DBE | POLR2A | 2:234776893..234777041 |
ENCFF002DBO | POLR2A | 2:234776833..234777092 |
ENCFF002DBP | POLR2A | 2:234776883..234777093 |
ENCFF002DBQ | POLR2A | 2:234776780..234777150 |
ENCFF002DBT | POLR2A | 2:234776798..234777168 |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_1751 |
Gorilla gorilla | retro_ggor_1820 |
Pongo abelii | retro_pabe_2166 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000009278 | 1 retrocopy | |
Callithrix jacchus | ENSCJAG00000001061 | 1 retrocopy | |
Cavia porcellus | ENSCPOG00000004692 | 5 retrocopies | |
Homo sapiens | ENSG00000005302 | 2 retrocopies |
retro_hsap_2401 , retro_hsap_4097,
|
Gorilla gorilla | ENSGGOG00000006582 | 2 retrocopies | |
Macaca mulatta | ENSMMUG00000002689 | 2 retrocopies | |
Monodelphis domestica | ENSMODG00000017350 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000020123 | 2 retrocopies | |
Pan troglodytes | ENSPTRG00000021662 | 2 retrocopies | |
Pteropus vampyrus | ENSPVAG00000005000 | 1 retrocopy | |
Sorex araneus | ENSSARG00000008477 | 1 retrocopy | |
Tarsius syrichta | ENSTSYG00000012788 | 4 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .11 RPM |
CEU_NA11843 | 2 .30 RPM |
CEU_NA11930 | 0 .00 RPM |
CEU_NA12004 | 4 .48 RPM |
CEU_NA12400 | 2 .67 RPM |
CEU_NA12751 | 3 .79 RPM |
CEU_NA12760 | 2 .78 RPM |
CEU_NA12827 | 5 .57 RPM |
CEU_NA12872 | 4 .16 RPM |
CEU_NA12873 | 0 .10 RPM |
FIN_HG00183 | 4 .91 RPM |
FIN_HG00277 | 3 .22 RPM |
FIN_HG00315 | 4 .44 RPM |
FIN_HG00321 | 6 .05 RPM |
FIN_HG00328 | 2 .06 RPM |
FIN_HG00338 | 5 .41 RPM |
FIN_HG00349 | 3 .81 RPM |
FIN_HG00375 | 4 .03 RPM |
FIN_HG00377 | 3 .28 RPM |
FIN_HG00378 | 3 .44 RPM |
GBR_HG00099 | 3 .28 RPM |
GBR_HG00111 | 2 .67 RPM |
GBR_HG00114 | 3 .34 RPM |
GBR_HG00119 | 5 .20 RPM |
GBR_HG00131 | 4 .63 RPM |
GBR_HG00133 | 3 .64 RPM |
GBR_HG00134 | 4 .28 RPM |
GBR_HG00137 | 2 .91 RPM |
GBR_HG00142 | 6 .36 RPM |
GBR_HG00143 | 4 .91 RPM |
TSI_NA20512 | 3 .08 RPM |
TSI_NA20513 | 3 .75 RPM |
TSI_NA20518 | 5 .80 RPM |
TSI_NA20532 | 3 .67 RPM |
TSI_NA20538 | 4 .56 RPM |
TSI_NA20756 | 3 .70 RPM |
TSI_NA20765 | 2 .55 RPM |
TSI_NA20771 | 3 .97 RPM |
TSI_NA20786 | 0 .03 RPM |
TSI_NA20798 | 4 .43 RPM |
YRI_NA18870 | 4 .77 RPM |
YRI_NA18907 | 2 .22 RPM |
YRI_NA18916 | 4 .46 RPM |
YRI_NA19093 | 4 .32 RPM |
YRI_NA19099 | 4 .18 RPM |
YRI_NA19114 | 3 .33 RPM |
YRI_NA19118 | 4 .25 RPM |
YRI_NA19213 | 4 .74 RPM |
YRI_NA19214 | 5 .21 RPM |
YRI_NA19223 | 5 .75 RPM |