RetrogeneDB ID: | retro_hsap_3010 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 4:170753803..170754511(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000248625 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | CLNS1A | ||
Ensembl ID: | ENSG00000074201 | ||
Aliases: | CLNS1A, CLCI, CLNS1B, ICln | ||
Description: | chloride channel, nucleotide-sensitive, 1A [Source:HGNC Symbol;Acc:2080] |
Percent Identity: | 83.26 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 2 |
Parental | MSFLKSFPPPGPAEGLLRQQPDTEAVLNGKGLGTGTLYIAESRLSWLDGSGLGFSLEYPTISLHALSRDR |
MSF.KSFP..GP.EGLL.QQPDT.AV.NGKGL.TGTLYIAES.LSWLDGSGL.FSLE.PTI.LHALSRD. | |
Retrocopy | MSFFKSFPLSGPVEGLL*QQPDTKAVVNGKGLSTGTLYIAESHLSWLDGSGLRFSLECPTICLHALSRDQ |
Parental | SDCLGEHLYVMVNAKFEEESKEPVADEEEEDSDDDVE-PITEFRFVPSDKSALEAMFTAMCECQALHPDP |
SD.LGEHLYVMV.AKFEE.SKE.VADEEEE.SD.DVE..ITEFRFVPSDKS.LEA.FTAMCECQ.LHPD. | |
Retrocopy | SDYLGEHLYVMVKAKFEEGSKEFVADEEEENSDNDVE<TITEFRFVPSDKSTLEATFTAMCECQYLHPDA |
Parental | EDEDSDDYDGEEYDVEAHEQGQGDIPTFYTYEEG-LSHLTAEGQATLERLEGMLSQSVSSQYNMAGVRTE |
EDEDSD.YDGEEYDVEA.EQG.GDIPTFYT.EEG.LSHLTAEGQ.T..RLEG.LSQSVS.QY.M.GVRTE | |
Retrocopy | EDEDSDAYDGEEYDVEAQEQGHGDIPTFYTCEEG>LSHLTAEGQ-TCWRLEGTLSQSVSCQYHMVGVRTE |
Parental | DSIRDYEDGMEVDTTPTVAGQFEDADVDH |
DSI.D.E.GMEVDTTPTVAGQFEDADVDH | |
Retrocopy | DSIGDDEAGMEVDTTPTVAGQFEDADVDH |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 36 .12 RPM |
bodymap2_adrenal | 0 .00 RPM | 44 .71 RPM |
bodymap2_brain | 0 .00 RPM | 57 .29 RPM |
bodymap2_breast | 0 .00 RPM | 40 .29 RPM |
bodymap2_colon | 0 .00 RPM | 47 .70 RPM |
bodymap2_heart | 0 .00 RPM | 31 .03 RPM |
bodymap2_kidney | 0 .00 RPM | 36 .42 RPM |
bodymap2_liver | 0 .00 RPM | 35 .78 RPM |
bodymap2_lung | 0 .00 RPM | 34 .32 RPM |
bodymap2_lymph_node | 0 .00 RPM | 44 .70 RPM |
bodymap2_ovary | 0 .00 RPM | 94 .28 RPM |
bodymap2_prostate | 0 .00 RPM | 53 .64 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 22 .97 RPM |
bodymap2_testis | 0 .04 RPM | 63 .03 RPM |
bodymap2_thyroid | 0 .00 RPM | 67 .11 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 78 .10 RPM |
TSS No. | TSS Name | TSS expression level (Expr) in TPM range: | ||||
---|---|---|---|---|---|---|
no expression | 0 < Expr ≤ 1 | 1 < Expr ≤ 5 | 5 < Expr ≤ 10 | Expr > 10 | ||
TSS #1 | TSS_141746 | 1421 libraries | 307 libraries | 97 libraries | 3 libraries | 1 library |
Species | RetrogeneDB ID |
---|---|
Gorilla gorilla | retro_ggor_2084 |
Pongo abelii | retro_pabe_2494 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000019930 | 1 retrocopy | |
Canis familiaris | ENSCAFG00000004900 | 6 retrocopies | |
Callithrix jacchus | ENSCJAG00000014927 | 1 retrocopy | |
Cavia porcellus | ENSCPOG00000005260 | 1 retrocopy | |
Felis catus | ENSFCAG00000026321 | 1 retrocopy | |
Homo sapiens | ENSG00000074201 | 2 retrocopies |
retro_hsap_3010 , retro_hsap_3595,
|
Gorilla gorilla | ENSGGOG00000003091 | 1 retrocopy | |
Macropus eugenii | ENSMEUG00000005935 | 4 retrocopies | |
Mus musculus | ENSMUSG00000025439 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000016699 | 2 retrocopies | |
Oryctolagus cuniculus | ENSOCUG00000024393 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000003712 | 1 retrocopy | |
Sorex araneus | ENSSARG00000009460 | 2 retrocopies | |
Ictidomys tridecemlineatus | ENSSTOG00000027980 | 3 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 .03 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 .03 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 |