Annotation Detail for SCN3A
Basic Information Top
| Gene Symbol: | SCN3A ( KIAA1356,NAC3,Nav1.3 ) |
|---|---|
| Gene Full Name: | sodium channel, voltage-gated, type III, alpha subunit |
| Band: | 2q24.3 |
| Quick Links | Entrez ID:6328; OMIM: 182391; Uniprot ID:SCN3A_HUMAN; ENSEMBL ID: ENSG00000153253; HGNC ID: 10590 |
| Relate to Another Database: | SFARIGene; denovo-db |
- Unigene ID: Hs.435274
| Pool Name | Gene EST/Total EST in pool | Transcripts per million(TPM) | Bar based on TPM |
|---|---|---|---|
 | |||
| embryoid body | 0 / 70761 | 0 | |
| blastocyst | 1 / 62319 | 16 |  |
| fetus | 9 / 564012 | 15 | |
| neonate | 0 / 31097 | 0 | |
| infant | 0 / 23620 | 0 | |
| juvenile | 0 / 55556 | 0 | |
| adult | 13 / 1939121 | 6 |  |
| Pool Name | Gene EST/Total EST in pool | Transcripts per million(TPM) | Bar based on TPM |
|---|---|---|---|
| |||
| adrenal tumor | 0 / 12794 | 0 | |
| bladder carcinoma | 0 / 17475 | 0 | |
| breast (mammary gland) tumor | 0 / 94178 | 0 | |
| cervical tumor | 0 / 34366 | 0 | |
| chondrosarcoma | 0 / 82823 | 0 | |
| colorectal tumor | 0 / 114246 | 0 | |
| esophageal tumor | 0 / 17290 | 0 | |
| gastrointestinal tumor | 0 / 119369 | 0 | |
| germ cell tumor | 1 / 263845 | 3 | |
| glioma | 3 / 106883 | 28 | |
| head and neck tumor | 3 / 136302 | 22 | |
| kidney tumor | 2 / 68959 | 29 | |
| leukemia | 0 / 95842 | 0 | |
| liver tumor | 0 / 96359 | 0 | |
| lung tumor | 0 / 103127 | 0 | |
| lymphoma | 0 / 71755 | 0 | |
| non-neoplasia | 2 / 97250 | 20 | |
| normal | 25 / 3360307 | 7 | |
| ovarian tumor | 0 / 76682 | 0 | |
| pancreatic tumor | 0 / 104616 | 0 | |
| primitive neuroectodermal tumor of the CNS | 0 / 125680 | 0 | |
| prostate cancer | 0 / 102680 | 0 | |
| retinoblastoma | 0 / 46356 | 0 | |
| skin tumor | 0 / 124949 | 0 | |
| soft tissue/muscle tissue tumor | 0 / 125191 | 0 | |
| uterine tumor | 0 / 90257 | 0 |
| Pool Name | Gene EST/Total EST in pool | Transcripts per million(TPM) | Bar based on TPM |
|---|---|---|---|
| |||
| adipose tissue | 0 / 13106 | 0 | |
| adrenal gland | 1 / 33197 | 30 | |
| ascites | 0 / 40015 | 0 | |
| bladder | 0 / 29757 | 0 | |
| blood | 0 / 123478 | 0 | |
| bone | 0 / 71655 | 0 | |
| bone marrow | 0 / 48801 | 0 | |
| brain | 25 / 1100989 | 22 | |
| cervix | 0 / 48171 | 0 | |
| connective tissue | 0 / 149255 | 0 | |
| ear | 0 / 16212 | 0 | |
| embryonic tissue | 1 / 215722 | 4 | |
| esophagus | 0 / 20209 | 0 | |
| eye | 3 / 211054 | 14 | |
| heart | 0 / 89626 | 0 | |
| intestine | 0 / 234472 | 0 | |
| kidney | 2 / 211777 | 9 | |
| larynx | 0 / 24145 | 0 | |
| liver | 0 / 207743 | 0 | |
| lung | 10 / 336974 | 29 | |
| lymph | 0 / 44270 | 0 | |
| lymph node | 0 / 91610 | 0 | |
| mammary gland | 0 / 153271 | 0 | |
| mouth | 2 / 67052 | 29 | |
| muscle | 1 / 107715 | 9 | |
| nerve | 1 / 15768 | 63 |  |
| ovary | 0 / 102051 | 0 | |
| pancreas | 0 / 214812 | 0 | |
| parathyroid | 0 / 20539 | 0 | |
| pharynx | 0 / 41328 | 0 | |
| pituitary gland | 0 / 16585 | 0 | |
| placenta | 0 / 280825 | 0 | |
| prostate | 0 / 189345 | 0 | |
| salivary gland | 0 / 20155 | 0 | |
| skin | 0 / 210574 | 0 | |
| spleen | 0 / 53952 | 0 | |
| stomach | 0 / 96619 | 0 | |
| testis | 5 / 330442 | 15 | |
| thymus | 2 / 81131 | 24 | |
| thyroid | 1 / 47473 | 21 | |
| tonsil | 0 / 16999 | 0 | |
| trachea | 2 / 52413 | 38 | |
| umbilical cord | 0 / 13680 | 0 | |
| uterus | 0 / 232878 | 0 | |
| vascular | 0 / 51780 | 0 |
- Microarray Platform: GeneAtlas U133A, gcrma
- Affymatrix Probe ID: 210432_s_at
| Cell line | Expression level | Expression bar |
|---|---|---|
| ||
| 721_B_lymphoblasts | 6.5 | |
| Adipocyte | 5.85 | |
| AdrenalCortex | 6.95 | |
| Adrenalgland | 5.4 | |
| Amygdala | 86.95 | |
| Appendix | 10.85 | |
| AtrioventricularNode | 6.35 | |
| BDCA4+_DentriticCells | 6.05 | |
| Bonemarrow | 6.6 | |
| BronchialEpithelialCells | 5.7 | |
| CD105+_Endothelial | 6.1 | |
| CD14+_Monocytes | 6.35 | |
| CD19+_BCells(neg._sel.) | 34.05 | |
| CD33+_Myeloid | 7.25 | |
| CD34+ | 7.15 | |
| CD4+_Tcells | 6.2 | |
| CD56+_NKCells | 6.65 | |
| CD71+_EarlyErythroid | 5.75 | |
| CD8+_Tcells | 5.3 | |
| CardiacMyocytes | 9.2 | |
| Caudatenucleus | 40.2 | |
| Cerebellum | 5.5 | |
| CerebellumPeduncles | 11.3 | |
| CiliaryGanglion | 5.2 | |
| CingulateCortex | 15.4 | |
| Colorectaladenocarcinoma | 6.05 | |
| DorsalRootGanglion | 5.55 | |
| FetalThyroid | 6.1 | |
| Fetalbrain | 899.75 |  |
| Fetalliver | 5.3 | |
| Fetallung | 4.55 | |
| GlobusPallidus | 8.85 | |
| Heart | 10 | |
| Hypothalamus | 104.55 | |
| Kidney | 5.2 | |
| Leukemia_chronicMyelogenousK-562 | 5.35 | |
| Leukemia_promyelocytic-HL-60 | 5.35 | |
| Leukemialymphoblastic(MOLT-4) | 56.15 | |
| Liver | 8.6 | |
| Lung | 6.55 | |
| Lymphnode | 5 | |
| Lymphoma_burkitts(Daudi) | 7.85 | |
| Lymphoma_burkitts(Raji) | 9 | |
| MedullaOblongata | 22.4 | |
| OccipitalLobe | 32.65 | |
| OlfactoryBulb | 4.65 | |
| Ovary | 4.5 | |
| Pancreas | 5 | |
| PancreaticIslet | 6.45 | |
| ParietalLobe | 7.1 | |
| Pituitary | 29.7 | |
| Placenta | 5.85 | |
| Pons | 8.25 | |
| PrefrontalCortex | 113.5 | |
| Prostate | 6.85 | |
| Salivarygland | 5.1 | |
| SkeletalMuscle | 9.7 | |
| Skin | 5.35 | |
| SmoothMuscle | 6.75 | |
| Spinalcord | 6.5 | |
| SubthalamicNucleus | 8.55 | |
| SuperiorCervicalGanglion | 11.95 | |
| TemporalLobe | 9.65 | |
| Testis | 5.15 | |
| TestisGermCell | 4.7 | |
| TestisIntersitial | 5.2 | |
| TestisLeydigCell | 6.7 | |
| TestisSeminiferousTubule | 5.15 | |
| Thalamus | 11.1 | |
| Thymus | 4.75 | |
| Thyroid | 7.3 | |
| Tongue | 6.6 | |
| Tonsil | 6.2 | |
| Trachea | 5 | |
| TrigeminalGanglion | 7.15 | |
| Uterus | 4.7 | |
| UterusCorpus | 6.3 | |
| WholeBlood | 6.5 | |
| Wholebrain | 8 | |
| colon | 6.05 | |
| pineal_day | 7.36 | |
| pineal_night | 7.26 | |
| retina | 7.275 | |
| small_intestine | 5.7 | |
- Probe name: CUST_550_PI416408490
- Donor H0351.2001
- Sex: Male Age: 24 years Race/Ethnicity: African American Handedness: Left
- Tissue Receipt Date: 7/29/2009 Serology: Pass Tissue pH :6.72 Additional Medical Information :History of asthma
- Postmortem Interval: 23 hours (estimated time of death to time that tissue is frozen)
- Toxicology: Positive for atropine and caffeine, at levels usually not toxicologically significant
| Tissue | Expression(mean ± stddev) | Expression Bar |
|---|---|---|
| Amygdala | 6.17 ± 0.47 | ![](../"images/bar_3.png"){kind=small}   |
| Basal Forebrain | 6.17 ± 0.4 | |
| Basal Part of Pons | 5.21 ± 0.44 | |
| Cerebellar Cortex | 5.97 ± 0.29 | |
| Cerebellar Nuclei | 5.02 ± 0.59 | |
| Claustrum | 6.19 ± 0.56 | |
| Epithalamus | 5.73 ± 0.41 | |
| Frontal Lobe | 5.67 ± 0.62 | |
| Globus Pallidus | 4.23 ± 0.49 | |
| Hypothalamus | 6.76 ± 0.13 | |
| Insula | 6.25 ± 0.3 | |
| Limbic Lobe | 5.89 ± 0.64 | |
| Mesencephalon | 5.96 ± 0.6 | |
| Myelencephalon | 5.77 ± 0.73 | |
| Occipital Lobe | 5.83 ± 0.52 | |
| Parietal Lobe | 5.58 ± 0.49 | |
| Pontine Tegmentum | 5.91 ± 0.7 | |
| Striatum | 6.21 ± 0.5 | |
| Subthalamus | 5.53 ± 0.69 | |
| Temporal Lobe | 6.05 ± 0.44 | |
| Thalamus | 5.67 ± 0.63 | |
| White Matter | 3.99 ± 0.25 | |
Mouse Brain ISH 
| Gene Symbol | Brain Structure ID | Brain Structure Name | Express Desity/Level (Meatured by ISH) | Express Bar |
|---|---|---|---|---|
| Scn3a | CB | Cerebellum | 0.27 | |
| 0.47 | | |||
| Scn3a | CTX | Cerebral cortex | 0.47 | |
| 0.7 | | |||
| Scn3a | HIP | Hippocampal region | 0.29 | |
| 0.6 | | |||
| Scn3a | HPF | Hippocampal formation | 0.22 | |
| 0.38 | | |||
| Scn3a | HY | Hypothalamus | 0.02 | |
| 0.02 | | |||
| Scn3a | LSX | Lateral septal complex | 0.31 | |
| 0.6 | | |||
| Scn3a | MB | Midbrain | 0.19 | |
| 0.28 | | |||
| Scn3a | MY | Medulla | 0.1 | |
| 0.31 | | |||
| Scn3a | OLF | Olfactory bulb | 0.22 | |
| 0.32 | | |||
| Scn3a | P | Pons | 0.87 | |
| 1.44 | | |||
| Scn3a | PAL | Pallidum | 0.13 | |
| 0.13 | | |||
| Scn3a | RHP | Retrohippocampal region | 0.1 | |
| 0.08 | | |||
| Scn3a | sAMY | Striatum-like amygdalar nuclei | 0.11 | |
| 0.14 | | |||
| Scn3a | STR | Striatum | 0.12 | |
| 0.14 | | |||
| Scn3a | STRd | Striatum dorsal region | 0.11 | |
| 0.1 | | |||
| Scn3a | STRv | Striatum ventral region | 0.09 | |
| 0.11 | | |||
| Scn3a | TH | Thalamus | 0.4 | |
| 0.57 | |
| Peptide Name | Peptide Lengh | Peptide Start | Peptide End | Peptide Sequence | Source |
|---|---|---|---|---|---|
| PAp00070342 | 12 | 1847 | 1858 | IHCLDILFAFTK | Peptide Atlas |