Name | Number of supported studies | Average coverage | |
---|---|---|---|
endothelial cell | 22 studies | 30% ± 12% | |
natural killer cell | 13 studies | 20% ± 4% | |
astrocyte | 13 studies | 31% ± 14% | |
macrophage | 13 studies | 29% ± 13% | |
ciliated cell | 11 studies | 28% ± 14% | |
classical monocyte | 11 studies | 20% ± 5% | |
microglial cell | 11 studies | 32% ± 13% | |
oligodendrocyte precursor cell | 11 studies | 32% ± 15% | |
oligodendrocyte | 11 studies | 32% ± 13% | |
glutamatergic neuron | 10 studies | 42% ± 23% | |
fibroblast | 10 studies | 25% ± 7% | |
CD16-positive, CD56-dim natural killer cell, human | 9 studies | 22% ± 6% | |
adipocyte | 9 studies | 33% ± 10% | |
pericyte | 8 studies | 24% ± 8% | |
B cell | 8 studies | 23% ± 7% | |
myeloid cell | 8 studies | 30% ± 6% | |
epithelial cell | 8 studies | 38% ± 19% | |
monocyte | 7 studies | 32% ± 13% | |
T cell | 7 studies | 23% ± 7% | |
non-classical monocyte | 7 studies | 21% ± 6% | |
CD16-negative, CD56-bright natural killer cell, human | 7 studies | 21% ± 5% | |
retinal cone cell | 7 studies | 28% ± 9% | |
GABAergic neuron | 7 studies | 45% ± 17% | |
neuron | 6 studies | 37% ± 16% | |
interneuron | 6 studies | 46% ± 22% | |
CD8-positive, alpha-beta T cell | 6 studies | 18% ± 3% | |
dendritic cell | 6 studies | 26% ± 5% | |
mast cell | 6 studies | 25% ± 8% | |
smooth muscle cell | 6 studies | 23% ± 6% | |
type I pneumocyte | 6 studies | 29% ± 9% | |
naive B cell | 6 studies | 19% ± 2% | |
basal cell | 5 studies | 26% ± 18% | |
Mueller cell | 5 studies | 24% ± 4% | |
endothelial cell of lymphatic vessel | 5 studies | 29% ± 6% | |
club cell | 5 studies | 26% ± 9% | |
type II pneumocyte | 5 studies | 23% ± 6% | |
CD8-positive, alpha-beta memory T cell | 5 studies | 17% ± 1% | |
granule cell | 4 studies | 30% ± 7% | |
cardiac muscle cell | 4 studies | 33% ± 3% | |
lymphocyte | 4 studies | 32% ± 9% | |
amacrine cell | 4 studies | 22% ± 3% | |
retina horizontal cell | 4 studies | 22% ± 3% | |
retinal rod cell | 4 studies | 28% ± 5% | |
abnormal cell | 4 studies | 28% ± 15% | |
respiratory goblet cell | 4 studies | 30% ± 12% | |
gamma-delta T cell | 4 studies | 20% ± 4% | |
squamous epithelial cell | 3 studies | 44% ± 19% | |
hematopoietic precursor cell | 3 studies | 30% ± 14% | |
plasmablast | 3 studies | 26% ± 6% | |
GABAergic interneuron | 3 studies | 26% ± 4% | |
precursor B cell | 3 studies | 21% ± 4% | |
plasma cell | 3 studies | 30% ± 8% | |
CD4-positive, alpha-beta T cell | 3 studies | 21% ± 3% | |
retinal bipolar neuron | 3 studies | 20% ± 3% | |
GABAergic amacrine cell | 3 studies | 22% ± 4% | |
glycinergic amacrine cell | 3 studies | 22% ± 1% | |
hepatocyte | 3 studies | 44% ± 18% | |
retinal pigment epithelial cell | 3 studies | 47% ± 18% | |
ependymal cell | 3 studies | 31% ± 14% | |
alveolar macrophage | 3 studies | 32% ± 12% | |
goblet cell | 3 studies | 43% ± 30% | |
brush cell | 3 studies | 20% ± 1% | |
mural cell | 3 studies | 29% ± 10% |
Tissue | GTEx Coverage | GTEx Average TPM | GTEx Number of samples | TCGA Coverage | TCGA Average TPM | TCGA Number of samples |
---|---|---|---|---|---|---|
esophagus | 100% | 2985.14 | 1445 / 1445 | 100% | 20.39 | 183 / 183 |
lung | 100% | 3388.66 | 578 / 578 | 100% | 11.08 | 1154 / 1155 |
breast | 100% | 2578.22 | 459 / 459 | 100% | 14.45 | 1117 / 1118 |
uterus | 100% | 2781.86 | 170 / 170 | 100% | 10.28 | 458 / 459 |
ovary | 100% | 2743.14 | 180 / 180 | 100% | 9.16 | 429 / 430 |
prostate | 100% | 2536.11 | 245 / 245 | 100% | 10.11 | 500 / 502 |
pancreas | 100% | 1528.63 | 328 / 328 | 99% | 9.74 | 177 / 178 |
bladder | 100% | 2531.52 | 21 / 21 | 99% | 9.76 | 501 / 504 |
brain | 99% | 1970.46 | 2624 / 2642 | 100% | 10.50 | 705 / 705 |
thymus | 100% | 2641.19 | 653 / 653 | 99% | 9.77 | 600 / 605 |
stomach | 100% | 2084.76 | 359 / 359 | 98% | 12.01 | 281 / 286 |
intestine | 100% | 2979.41 | 966 / 966 | 98% | 9.88 | 514 / 527 |
kidney | 100% | 1639.66 | 89 / 89 | 97% | 9.46 | 877 / 901 |
liver | 100% | 1490.49 | 226 / 226 | 97% | 6.35 | 395 / 406 |
adrenal gland | 100% | 2059.15 | 258 / 258 | 96% | 7.37 | 221 / 230 |
skin | 100% | 2895.38 | 1809 / 1809 | 93% | 7.85 | 438 / 472 |
adipose | 100% | 2706.22 | 1204 / 1204 | 0% | 0 | 0 / 0 |
lymph node | 0% | 0 | 0 / 0 | 100% | 12.70 | 29 / 29 |
muscle | 100% | 3335.42 | 803 / 803 | 0% | 0 | 0 / 0 |
spleen | 100% | 3851.07 | 241 / 241 | 0% | 0 | 0 / 0 |
tonsil | 0% | 0 | 0 / 0 | 100% | 10.32 | 45 / 45 |
ureter | 0% | 0 | 0 / 0 | 100% | 4.25 | 1 / 1 |
blood vessel | 100% | 2159.31 | 1334 / 1335 | 0% | 0 | 0 / 0 |
peripheral blood | 98% | 2931.95 | 915 / 929 | 0% | 0 | 0 / 0 |
heart | 98% | 1660.05 | 847 / 861 | 0% | 0 | 0 / 0 |
eye | 0% | 0 | 0 / 0 | 74% | 3.96 | 59 / 80 |
abdomen | 0% | 0 | 0 / 0 | 0% | 0 | 0 / 0 |
bone marrow | 0% | 0 | 0 / 0 | 0% | 0 | 0 / 0 |
diaphragm | 0% | 0 | 0 / 0 | 0% | 0 | 0 / 0 |
gingiva | 0% | 0 | 0 / 0 | 0% | 0 | 0 / 0 |
nasal cavity | 0% | 0 | 0 / 0 | 0% | 0 | 0 / 0 |
nasopharynx | 0% | 0 | 0 / 0 | 0% | 0 | 0 / 0 |
nose | 0% | 0 | 0 / 0 | 0% | 0 | 0 / 0 |
placenta | 0% | 0 | 0 / 0 | 0% | 0 | 0 / 0 |
spinal column | 0% | 0 | 0 / 0 | 0% | 0 | 0 / 0 |
GO_0043029 | Biological process | T cell homeostasis |
GO_1901224 | Biological process | positive regulation of non-canonical NF-kappaB signal transduction |
GO_0000209 | Biological process | protein polyubiquitination |
GO_0043488 | Biological process | regulation of mRNA stability |
GO_0042098 | Biological process | T cell proliferation |
GO_0048535 | Biological process | lymph node development |
GO_0002634 | Biological process | regulation of germinal center formation |
GO_0006511 | Biological process | ubiquitin-dependent protein catabolic process |
GO_0071347 | Biological process | cellular response to interleukin-1 |
GO_0033962 | Biological process | P-body assembly |
GO_0001782 | Biological process | B cell homeostasis |
GO_0010608 | Biological process | post-transcriptional regulation of gene expression |
GO_0000184 | Biological process | nuclear-transcribed mRNA catabolic process, nonsense-mediated decay |
GO_0002635 | Biological process | negative regulation of germinal center formation |
GO_0050852 | Biological process | T cell receptor signaling pathway |
GO_0061158 | Biological process | 3'-UTR-mediated mRNA destabilization |
GO_0048536 | Biological process | spleen development |
GO_2000320 | Biological process | negative regulation of T-helper 17 cell differentiation |
GO_0046007 | Biological process | negative regulation of activated T cell proliferation |
GO_0061470 | Biological process | T follicular helper cell differentiation |
GO_2000628 | Biological process | regulation of miRNA metabolic process |
GO_0000288 | Biological process | nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay |
GO_0050856 | Biological process | regulation of T cell receptor signaling pathway |
GO_1900151 | Biological process | regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay |
GO_0000956 | Biological process | nuclear-transcribed mRNA catabolic process |
GO_0045623 | Biological process | negative regulation of T-helper cell differentiation |
GO_0030889 | Biological process | negative regulation of B cell proliferation |
GO_0000932 | Cellular component | P-body |
GO_0010494 | Cellular component | cytoplasmic stress granule |
GO_0061630 | Molecular function | ubiquitin protein ligase activity |
GO_0003729 | Molecular function | mRNA binding |
GO_1905762 | Molecular function | CCR4-NOT complex binding |
GO_0008270 | Molecular function | zinc ion binding |
GO_0003723 | Molecular function | RNA binding |
GO_0004842 | Molecular function | ubiquitin-protein transferase activity |
GO_0003730 | Molecular function | mRNA 3'-UTR binding |
GO_0035198 | Molecular function | miRNA binding |
GO_0035613 | Molecular function | RNA stem-loop binding |
GO_0005515 | Molecular function | protein binding |
GO_0003725 | Molecular function | double-stranded RNA binding |
Gene name | RC3H1 |
Protein name | RING-type E3 ubiquitin transferase (EC 2.3.2.27) Roquin-1 (Roquin) (EC 2.3.2.27) (RING finger and C3H zinc finger protein 1) (RING finger and CCCH-type zinc finger domain-containing protein 1) (RING finger protein 198) |
Synonyms | KIAA2025 RNF198 |
Description | FUNCTION: Post-transcriptional repressor of mRNAs containing a conserved stem loop motif, called constitutive decay element (CDE), which is often located in the 3'-UTR, as in HMGXB3, ICOS, IER3, NFKBID, NFKBIZ, PPP1R10, TNF, TNFRSF4 and in many more mRNAs . Cleaves translationally inactive mRNAs harboring a stem-loop (SL), often located in their 3'-UTRs, during the early phase of inflammation in a helicase UPF1-independent manner (By similarity). Binds to CDE and promotes mRNA deadenylation and degradation. This process does not involve miRNAs (By similarity). In follicular helper T (Tfh) cells, represses of ICOS and TNFRSF4 expression, thus preventing spontaneous Tfh cell differentiation, germinal center B-cell differentiation in the absence of immunization and autoimmunity (By similarity). In resting or LPS-stimulated macrophages, controls inflammation by suppressing TNF expression (By similarity). Also recognizes CDE in its own mRNA and in that of paralogous RC3H2, possibly leading to feedback loop regulation (By similarity). Recognizes and binds mRNAs containing a hexaloop stem-loop motif, called alternative decay element (ADE) (By similarity). Together with ZC3H12A, destabilizes TNFRSF4/OX40 mRNA by binding to the conserved stem loop structure in its 3'UTR (By similarity). Able to interact with double-stranded RNA (dsRNA) . miRNA-binding protein that regulates microRNA homeostasis. Enhances DICER-mediated processing of pre-MIR146a but reduces mature MIR146a levels through an increase of 3' end uridylation. Both inhibits ICOS mRNA expression and they may act together to exert the suppression . Acts as a ubiquitin E3 ligase. Pairs with E2 enzymes UBE2A, UBE2B, UBE2D2, UBE2F, UBE2G1, UBE2G2 and UBE2L3 and produces polyubiquitin chains . Shows the strongest activity when paired with UBE2N:UBE2V1 or UBE2N:UBE2V2 E2 complexes and generate both short and long polyubiquitin chains . . |
Accessions | Q5TC82 ENST00000367696.7 [Q5TC82-1] ENST00000258349.8 [Q5TC82-1] B7ZMB3 ENST00000367694.2 [Q5TC82-2] B9EGU6 |