SomamiR DB 2.0
Somatic mutations altering microRNA-ceRNA interactions
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PolymiRTS Database
Prediction criteria: TargetScan sites only     All 6mer or longer seed matches
RefSeq ID: NM_004169
Gene Symbol: SHMT1
Description: Homo sapiens serine hydroxymethyltransferase 1 (soluble) (SHMT1), nuclear gene encoding mitochondrial protein, transcript variant 1, mRNA.
Gene Location: chr17(-):18231186-18266856
Browse Associations
Browse Pathways

Somatic mutations that impact miRNA target sites


Mutation Mutation ID Sample Name Cancer Type
chr17:g.18327999A>G COSN1714817 RK086_C01 [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-224-3p tagatgACCATTTTtaata
 11
 AAAAUGGU m8a Disrupted -0.158000 no TS 0.090000
hsa-miR-522-3p tagatgACCATTTTtaata
 11
 AAAAUGGU m8a Disrupted -0.148000 no TS -0.070000
hsa-miR-548ac tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.021000 2.010000
hsa-miR-548ae tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024000 -0.770000
hsa-miR-548ah-3p tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024000 -4.210000
hsa-miR-548aj-3p tagatgaccGTTTTTAata
 0 UAAAAACU m7a (m6a->m7a) no TS 0.024000 -0.770000
hsa-miR-548am-3p tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024000 -3.380000
hsa-miR-548aq-3p tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024000 -3.630000
hsa-miR-548c-3p tagatgaccATTTTTaata
 6
 CAAAAAUC m6b Disrupted 0.217000 0.136000 1.570000
hsa-miR-548d-3p tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.018000 -0.680000
hsa-miR-548h-3p tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.021000 -2.980000
hsa-miR-548x-3p tagatgaccGTTTTTAata
 0 UAAAAACU m7a (m6a->m7a) no TS 0.024000 -0.770000
hsa-miR-548z tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.021000 -2.980000
hsa-miR-553 tagatgACCGTTTTtaata
 0 AAAACGGU m8a Created no TS -0.300000 -5.270000
hsa-miR-224-3p tagatgACCATTTTtaata
 11
 AAAAUGGU m8a Disrupted -0.158000 no TS 0.090000
hsa-miR-522-3p tagatgACCATTTTtaata
 11
 AAAAUGGU m8a Disrupted -0.148000 no TS -0.070000
hsa-miR-548ac tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.021000 2.010000
hsa-miR-548ae tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024000 -0.770000
hsa-miR-548ah-3p tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024000 -4.210000
hsa-miR-548aj-3p tagatgaccGTTTTTAata
 0 UAAAAACU m7a (m6a->m7a) no TS 0.024000 -0.770000
hsa-miR-548am-3p tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024000 -3.380000
hsa-miR-548aq-3p tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024000 -3.630000
hsa-miR-548c-3p tagatgaccATTTTTaata
 6
 CAAAAAUC m6b Disrupted 0.217000 0.136000 1.570000
hsa-miR-548d-3p tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.018000 -0.680000
hsa-miR-548h-3p tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.021000 -2.980000
hsa-miR-548x-3p tagatgaccGTTTTTAata
 0 UAAAAACU m7a (m6a->m7a) no TS 0.024000 -0.770000
hsa-miR-548z tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.021000 -2.980000
hsa-miR-553 tagatgACCGTTTTtaata
 0 AAAACGGU m8a Created no TS -0.300000 -5.270000
hsa-miR-224-3p tagatgACCATTTTtaata
 0 AAAAUGGU m8a Disrupted -0.158 no TS 0.09
hsa-miR-522-3p tagatgACCATTTTtaata
 0 AAAAUGGU m8a Disrupted -0.148 no TS -0.07
hsa-miR-548ac tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.021 2.01
hsa-miR-548ae tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024 -0.77
hsa-miR-548ah-3p tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024 -4.21
hsa-miR-548aj-3p tagatgaccGTTTTTAata
 0 UAAAAACU m7a (m6a->m7a) no TS 0.024 -0.77
hsa-miR-548am-3p tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024 -3.38
hsa-miR-548aq-3p tagatgaccGTTTTTaata
 0 CAAAAACU m6b Created no TS 0.024 -3.63
hsa-miR-548c-3p tagatgaccATTTTTaata
 0 CAAAAAUC m6b Disrupted 0.217 0.136 1.57
hsa-miR-548d-3p tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.018 -0.68
hsa-miR-548h-3p tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.021 -2.98
hsa-miR-548x-3p tagatgaccGTTTTTAata
 0 UAAAAACU m7a (m6a->m7a) no TS 0.024 -0.77
hsa-miR-548z tagatgaccGTTTTTaata
 0 CAAAAACC m6b Created no TS 0.021 -2.98
hsa-miR-553 tagatgACCGTTTTtaata
 0 AAAACGGU m8a Created no TS -0.3 -5.27

Mutation Mutation ID Sample Name Cancer Type
chr17:g.18328483A>G COSN6654275 CHC205T [liver][NS][carcinoma][hepatocellular_carcinoma]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-200a-5p ggaaaaTAAGATactatgt
 0 CAUCUUAC m6b Created no TS -0.043000 -3.090000
hsa-miR-200b-5p ggaaaaTAAGATactatgt
 0 CAUCUUAC m6b Created no TS -0.043000 No effect

Mutation Mutation ID Sample Name Cancer Type
chr17:g.18328557T>A COSN1193786 HCC20T [liver][NS][carcinoma][hepatocellular_carcinoma]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-16-1-3p gttagtAATACTGGgacag
 0 CCAGUAUU m8a Created no TS -0.114000 -4.651000
hsa-miR-16-1-3p gttagtAATACTGGgacag
 0 CCAGUAUU m8a Created no TS -0.114 -4.651

Mutation Mutation ID Sample Name Cancer Type
chr17:g.18328641C>G COSN8602471 J32_T [lung][NS][carcinoma][squamous_cell_carcinoma]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-199a-5p gttgACACTGGGgcccttt
 0 CCCAGUGU m8a Created no TS -0.120000 -3.060000
hsa-miR-199b-5p gttgACACTGGGgcccttt
 0 CCCAGUGU m8a Created no TS -0.120000 -2.090000
hsa-miR-296-5p gttgacactGGGGCCCTtt
 1
 AGGGCCCC m8a (m7a->m8a) 0.000000 -0.762000 0.200000

Mutation Mutation ID Sample Name Cancer Type
chr17:g.18328684C>T COSN6654276 CHC205T [liver][NS][carcinoma][hepatocellular_carcinoma]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-125a-3p gaccccCACCTGagagatg
 0 ACAGGUGA m6b Disrupted -0.208000 -0.115000 No effect
hsa-miR-1266 gacccccaCCTGAGagatg
 0 CCUCAGGG m6b Disrupted -0.188000 -0.108000 No effect
hsa-miR-4447 gaCCCCCACCtgagagatg
 0 GGUGGGGG m8a (m8a->m7b) -0.198000 -0.225000 No effect
hsa-miR-4465 gacccccACTTGAGagatg
 0 CUCAAGUA m7a Created NA NA -1.350000
hsa-miR-4472 gaCCCCCACCtgagagatg
 0 GGUGGGGG m8a (m8a->m7b) -0.179000 -0.206000 No effect
hsa-miR-4518 gacccccaCCTGAGagatg
 0 GCUCAGGG m6b Disrupted -0.178000 -0.098000 0.010000
hsa-miR-513c-5p gacccccaCTTGAGAgatg
 0 UUCUCAAG m7b Created no TS -0.108000 -5.170000
hsa-miR-514b-5p gacccccaCTTGAGAgatg
 0 UUCUCAAG m7b Created no TS -0.089000 -3.700000
hsa-miR-764 gaccccCACCTGagagatg
 0 GCAGGUGC m6b Disrupted -0.213000 -0.111000 1.020000
hsa-miR-92a-2-5p gacCCCCACCtgagagatg
 0 GGGUGGGG m7b (m7b->m6c) -0.184000 no TS No effect

Mutation Mutation ID Sample Name Cancer Type
chr17:g.18328703C>G COSN6654277 CHC205T [liver][NS][carcinoma][hepatocellular_carcinoma]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-4514 aggaagCTGCCTGccggag
 1
 ACAGGCAG m7b Disrupted -0.084000 no TS 4.850000
hsa-miR-4692 aggaagCTGCCTGccggag
 1
 UCAGGCAG m7b Disrupted -0.093000 no TS 16.400000

*By default, only target sites identified by TargetScan are displayed. To display all potentially impacted target sites, select "All 6mer or longer seed matches" above.



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