RetrogeneDB ID: | retro_hsap_299 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 1:209405542..209406201(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000224540 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | TFDP1 | ||
Ensembl ID: | ENSG00000198176 | ||
Aliases: | TFDP1, DP1, DRTF1, Dp-1 | ||
Description: | transcription factor Dp-1 [Source:HGNC Symbol;Acc:11749] |
Percent Identity: | 85.27 % |
Parental protein coverage: | 93.64 % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 3 |
Parental | MAKDAGLIEANGELKVFIDQNLSPGKGV-VSLVAVHPSTVNPLGKQLLPKTFGQSNVNIAQQVVIGTPQR |
MAK.AGLIEANGELKVFIDQNLSPGKG..VSL.AVHPS.V.PLGKQLLPKTFGQSNVN...QVV.GTPQR | |
Retrocopy | MAKVAGLIEANGELKVFIDQNLSPGKGI>VSLIAVHPSIVSPLGKQLLPKTFGQSNVNVVPQVVTGTPQR |
Parental | PAASNTLVVGSPHTPSTHFASQNQPSDSSPWSAGKRNRKGEKNGK-GLRHFSMKVCEKVQRKGTTSYNEV |
PAASNTLV.GSPHT.STHFASQNQPSDSSPWSAGK.NRKGEKNGK.GL.HFS.KV..KVQ.KGTTSY.EV | |
Retrocopy | PAASNTLVIGSPHTASTHFASQNQPSDSSPWSAGKCNRKGEKNGK<GLWHFSRKV*DKVQWKGTTSYHEV |
Parental | ADELVAEFSAADNHILPNESAYDQKNI-RRRVYDALNVLMAMNIISKEKKEIKWIGLPTNSAQECQNLEV |
ADEL..EFSAA.NHILPNESAYDQ.NI.R.RVY.ALNVLMAMN.ISKEKKEIK..GLPTNSAQECQNLEV | |
Retrocopy | ADELAEEFSAAGNHILPNESAYDQSNI<RWRVYYALNVLMAMN-ISKEKKEIK*VGLPTNSAQECQNLEV |
Parental | ERQRRLERIKQKQS |
ERQR.L.RIKQK.S | |
Retrocopy | ERQRKLDRIKQKIS |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 21 .07 RPM |
bodymap2_adrenal | 0 .00 RPM | 51 .07 RPM |
bodymap2_brain | 0 .00 RPM | 22 .15 RPM |
bodymap2_breast | 0 .00 RPM | 49 .26 RPM |
bodymap2_colon | 0 .00 RPM | 44 .51 RPM |
bodymap2_heart | 0 .00 RPM | 44 .20 RPM |
bodymap2_kidney | 0 .00 RPM | 53 .21 RPM |
bodymap2_liver | 0 .00 RPM | 26 .53 RPM |
bodymap2_lung | 0 .00 RPM | 43 .64 RPM |
bodymap2_lymph_node | 0 .00 RPM | 50 .36 RPM |
bodymap2_ovary | 0 .00 RPM | 47 .38 RPM |
bodymap2_prostate | 0 .00 RPM | 38 .73 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 13 .62 RPM |
bodymap2_testis | 1 .02 RPM | 75 .75 RPM |
bodymap2_thyroid | 0 .06 RPM | 45 .40 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 53 .51 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_89040 | 1825 libraries | 1 library | 1 library | 1 library | 1 library |
Species | RetrogeneDB ID |
---|---|
Gorilla gorilla | retro_ggor_335 |
Pongo abelii | retro_pabe_378 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Choloepus hoffmanni | ENSCHOG00000004467 | 8 retrocopies | |
Callithrix jacchus | ENSCJAG00000006950 | 2 retrocopies | |
Homo sapiens | ENSG00000198176 | 4 retrocopies | |
Gorilla gorilla | ENSGGOG00000004908 | 2 retrocopies | |
Loxodonta africana | ENSLAFG00000007927 | 1 retrocopy | |
Myotis lucifugus | ENSMLUG00000012165 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000007423 | 1 retrocopy | |
Mus musculus | ENSMUSG00000038482 | 2 retrocopies | |
Nomascus leucogenys | ENSNLEG00000000849 | 3 retrocopies | |
Otolemur garnettii | ENSOGAG00000003532 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000025889 | 3 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .00 RPM |
CEU_NA11843 | 0 .03 RPM |
CEU_NA11930 | 0 .00 RPM |
CEU_NA12004 | 0 .04 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 .04 RPM |
FIN_HG00315 | 0 .03 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 .02 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 .02 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 |