Difference between revisions of "ENST00000556013.2"
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| − | + | ''PTCSC3'',shorted for papillary thyroid carcinoma susceptibility candidate 3,is involved in Papillary thyroid carcinoma. | |
==Annotated Information== | ==Annotated Information== | ||
===Transcriptomic Nomeclature=== | ===Transcriptomic Nomeclature=== | ||
| − | + | ''PTCSC3'':papillary thyroid carcinoma susceptibility candidate 3 (non-protein coding)(HGNC nomenclature) | |
| + | ===Characteristics=== | ||
| + | PTCSC3,a 1152 bp thyroid-specific lincRNA gene (PTCSC3), located in a linkage disequilibrium block with a GWAS-derived SNP (rs944289). | ||
===Function=== | ===Function=== | ||
| − | + | PTCSC3 expression is highly thyroid specific suggests that it is involved in thyroid function<ref name="ref1" />. | |
| + | |||
| + | PTCSC3 expression is significantly down-regulated in tumor compared with unaffected thyroid tissue, and the risk allele is associated with significantly stronger suppression of PTCSC3. The restoration of PTCSC3 expression in PTC cell line affects genes involved in thyroid tumorigenesis and inhibits cell growth<ref name="ref1" />. | ||
| − | === | + | rs944289 predisposes to PTC by dysregulating the expression of PTCSC3, which acts as a tumor suppressor<ref name="ref1" >. |
| − | + | ||
| + | ===Diseases=== | ||
| + | * Papillary thyroid carcinoma (PTC)<ref name="ref1" /> | ||
===Expression=== | ===Expression=== | ||
| − | + | PTCSC3 is almost uniquely expressed in thyroid tissue with very low expression additionally in kidney tissue<ref name="ref1" />. | |
| + | |||
| + | The cDNA of PTCSC3 was amplified by PCR, | ||
| + | {|class='wikitable' style="text-align:center" | ||
| + | |- | ||
| + | ! | Primer | ||
| + | ! | Forward | ||
| + | ! | Reverse | ||
| + | |- | ||
| + | | | PTCSC3 | ||
| + | | | 5'-gtacggtaccCTCCTTCAGACTTCTCAGTACTC-3' | ||
| + | | | 5'-tcgactcgagATTGCTACTGTGAGCATAACCTAC-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | | rs944289 | ||
| + | | | 5'-atcaggtaccGGCAATTGAAGTTCCCAAAA-3' | ||
| + | | | 5'-atcactcgagGCCTCCAGACTTGGACTGAG-3'<ref name="ref1" /> | ||
| + | |} | ||
===Allelic Information and Variation=== | ===Allelic Information and Variation=== | ||
| Line 23: | Line 45: | ||
==Labs working on this lncRNA== | ==Labs working on this lncRNA== | ||
| − | + | * Human Cancer Genetics Program, Comprehensive Cancer Center, The Ohio State University, Columbus<ref name="ref1" />. | |
==References== | ==References== | ||
| − | + | <references> | |
| + | <ref name="ref1">Jendrzejewski J, He H, Radomska HS, Li W, Tomsic J, Liyanarachchi S, et al. The polymorphism rs944289 predisposes to papillary thyroid carcinoma through a large intergenic noncoding RNA gene of tumor suppressor type[J]. Proceedings of the National Academy of Sciences of the United States of America. 2012,109(22):8646-51.</ref>(1) | ||
| + | </references> | ||
{{basic| | {{basic| | ||
tID = ENST00000556013.2| | tID = ENST00000556013.2| | ||
source = Gencode19| | source = Gencode19| | ||
| − | same = ,| | + | same = ''PTCSC3'',| |
classification = intergenic| | classification = intergenic| | ||
length = 571 nt| | length = 571 nt| | ||
Revision as of 12:20, 20 April 2015
PTCSC3,shorted for papillary thyroid carcinoma susceptibility candidate 3,is involved in Papillary thyroid carcinoma.
Contents
Annotated Information
Transcriptomic Nomeclature
PTCSC3:papillary thyroid carcinoma susceptibility candidate 3 (non-protein coding)(HGNC nomenclature)
Characteristics
PTCSC3,a 1152 bp thyroid-specific lincRNA gene (PTCSC3), located in a linkage disequilibrium block with a GWAS-derived SNP (rs944289).
Function
PTCSC3 expression is highly thyroid specific suggests that it is involved in thyroid function[1].
PTCSC3 expression is significantly down-regulated in tumor compared with unaffected thyroid tissue, and the risk allele is associated with significantly stronger suppression of PTCSC3. The restoration of PTCSC3 expression in PTC cell line affects genes involved in thyroid tumorigenesis and inhibits cell growth[1].
rs944289 predisposes to PTC by dysregulating the expression of PTCSC3, which acts as a tumor suppressorCite error: Closing </ref> missing for <ref> tag(1)
</references>
Basic Information
| Transcript ID |
ENST00000556013.2 |
| Source |
Gencode19 |
| Same with |
PTCSC3, |
| Classification |
intergenic |
| Length |
571 nt |
| Genomic location |
chr14-:36605314..36645674 |
| Exon number |
4 |
| Exons |
36605314..36605562,36623010..36623100,36631830..36631889,36645504..36645674 |
| Genome context |
|
| Sequence |
000001 GAAAGAGGAA AAAAGTGATC TGGGACCTGT TGTTTTTCTT GCATCCCATT TCTACTCTGC CTGTGAGTGA AGACTGTTGT 000080
000081 GGAAAAGTCA ACTGGAGAGA CCAGGTCAAA GGCCAAGCAG AAGAGGAATT AGGCTTAAGA CTGCACTGAG AGGGAACACT 000160 000161 AGACCATGGT GGCAAAATGG CCGAATAGGA GCAGCTCCAG TCTACAGCTC CCAGGGAGAT TAATGCAAAA GATGGAGTCT 000240 000241 CGACACGTTG CCCAAGCTGT TCTCAAACTC CAGGGCTTGA ACAATCTTCC CACCTTGGCC TCCCAAGGCA CTGGAATTAC 000320 000321 AGAGACAGTG CTCTGCAGGG AGTCTACCAC TGTGATGGTT AATACTGAGT GTCAACTTGA TTGGATTGAA GGATGCAAAG 000400 000401 TATTGTTCCT GGGTGTGTCT GTGAGGGTGT TGCCAAAGGA GATTAACATT TGAGTCAGTG GGCTGGGAAA GGTAGACCCA 000480 000481 GCCGTAATCT AGGTGGGCAC CATCTAATCA GCTGCCAGCA CAGCTAGAAG ATAAAGTAGG CAGAAAAACA TGAAAACATT 000560 000561 AGACTGGCCT A |
