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_199168
Gene Symbol: CXCL12
Description: Homo sapiens chemokine (C-X-C motif) ligand 12 (CXCL12), transcript variant 2, mRNA.
Gene Location: chr10(-):44872509-44880545
Browse Associations
Browse Pathways

Somatic mutations that impact miRNA target sites


Mutation Mutation ID Sample Name Cancer Type
chr10:g.44377104T>A COSN9209007 AOCS-058-1-5 [ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-5692a gggaatTTATTTacctgaa
 15
 CAAAUAAU m6b Disrupted 0.058000 no TS 0.310000


Mutation Mutation ID Sample Name Cancer Type
chr10:g.44377355A>G COSN1489835 RK015_C01 [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
No TargetScan sites are altered. To display all potentially impacted target sites, select "All 6mer or longer seed matches" above.


Mutation Mutation ID Sample Name Cancer Type
chr10:g.44377589G>A COSN6971134 8031121 [pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-129-5p atcagaaGCAAAAAaatca
 0 CUUUUUGC m7b Created no TS -0.111000 -0.160000
hsa-miR-3977 atcaGAAGCAaaaaaatca
 0 GUGCUUCA m6b Created no TS -0.093000 -0.350000
hsa-miR-4790-5p atcagAAGCGAaaaaatca
 1
 AUCGCUUU m6b Disrupted -0.189000 no TS 14.080000

Mutation Mutation ID Sample Name Cancer Type
chr10:g.44377710G>T COSN1119220 HCC29T [liver][NS][carcinoma][hepatocellular_carcinoma]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3607-3p gtcTTTACAGaatcaaatg
 2
 ACUGUAAA m7b (m7b->m6c) -0.078000 no TS 0.660000
hsa-miR-3686 gtctTTACAGAatcaaatg
 2
 AUCUGUAA m7b Disrupted -0.124000 no TS 1.360000
hsa-miR-379-3p gtctTTACATAatcaaatg
 0 UAUGUAAC m7a Created no TS 0.015000 -0.060000
hsa-miR-380-3p gtctTTACATAatcaaatg
 0 UAUGUAAU m7a Created no TS 0.020000 -0.610000
hsa-miR-3924 gtcttTACATAatcaaatg
 0 AUAUGUAU m6b Created no TS -0.001000 -0.130000
hsa-miR-411-3p gtctTTACATAatcaaatg
 0 UAUGUAAC m7a Created no TS 0.015000 -0.060000
hsa-miR-4495 gtcTTTACATaatcaaatg
 0 AAUGUAAA m7b (m6c->m7b) no TS -0.038000 -2.450000
hsa-miR-4778-5p gtctttACAGAATcaaatg
 2
 AAUUCUGU m7b Disrupted -0.095000 no TS 3.840000
hsa-miR-3607-3p gtcTTTACAGaatcaaatg
 2
 ACUGUAAA m7b (m7b->m6c) -0.078000 no TS 0.660000
hsa-miR-3686 gtctTTACAGAatcaaatg
 2
 AUCUGUAA m7b Disrupted -0.124000 no TS 1.360000
hsa-miR-379-3p gtctTTACATAatcaaatg
 0 UAUGUAAC m7a Created no TS 0.015000 -0.060000
hsa-miR-380-3p gtctTTACATAatcaaatg
 0 UAUGUAAU m7a Created no TS 0.020000 -0.610000
hsa-miR-3924 gtcttTACATAatcaaatg
 0 AUAUGUAU m6b Created no TS -0.001000 -0.130000
hsa-miR-411-3p gtctTTACATAatcaaatg
 0 UAUGUAAC m7a Created no TS 0.015000 -0.060000
hsa-miR-4495 gtcTTTACATaatcaaatg
 0 AAUGUAAA m7b (m6c->m7b) no TS -0.038000 -2.450000
hsa-miR-4778-5p gtctttACAGAATcaaatg
 2
 AAUUCUGU m7b Disrupted -0.095000 no TS 3.840000
hsa-miR-3607-3p gtcTTTACAGaatcaaatg
 2
 ACUGUAAA m7b (m7b->m6c) -0.078000 no TS 0.660000
hsa-miR-3686 gtctTTACAGAatcaaatg
 2
 AUCUGUAA m7b Disrupted -0.124000 no TS 1.360000
hsa-miR-379-3p gtctTTACATAatcaaatg
 0 UAUGUAAC m7a Created no TS 0.015000 -0.060000
hsa-miR-380-3p gtctTTACATAatcaaatg
 0 UAUGUAAU m7a Created no TS 0.020000 -0.610000
hsa-miR-3924 gtcttTACATAatcaaatg
 0 AUAUGUAU m6b Created no TS -0.001000 -0.130000
hsa-miR-411-3p gtctTTACATAatcaaatg
 0 UAUGUAAC m7a Created no TS 0.015000 -0.060000
hsa-miR-4495 gtcTTTACATaatcaaatg
 0 AAUGUAAA m7b (m6c->m7b) no TS -0.038000 -2.450000
hsa-miR-4778-5p gtctttACAGAATcaaatg
 2
 AAUUCUGU m7b Disrupted -0.095000 no TS 3.840000
hsa-miR-3607-3p gtcTTTACAGaatcaaatg
 0 ACUGUAAA m7b (m7b->m6c) -0.078 no TS 0.66
hsa-miR-3686 gtctTTACAGAatcaaatg
 0 AUCUGUAA m7b Disrupted -0.124 no TS 1.36
hsa-miR-379-3p gtctTTACATAatcaaatg
 0 UAUGUAAC m7a Created no TS 0.015 -0.06
hsa-miR-380-3p gtctTTACATAatcaaatg
 0 UAUGUAAU m7a Created no TS 0.02 -0.61
hsa-miR-3924 gtcttTACATAatcaaatg
 0 AUAUGUAU m6b Created no TS -0.001 -0.13
hsa-miR-411-3p gtctTTACATAatcaaatg
 0 UAUGUAAC m7a Created no TS 0.015 -0.06
hsa-miR-4495 gtcTTTACATaatcaaatg
 0 AAUGUAAA m7b (m6c->m7b) no TS -0.038 -2.45
hsa-miR-4778-5p gtctttACAGAATcaaatg
 0 AAUUCUGU m7b Disrupted -0.095 no TS 3.84

Mutation Mutation ID Sample Name Cancer Type
chr10:g.44377762C>A ICGC_ssm_v3_407 BN01T [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-1915-3p ggccctctCCTGGGGatgt
 0 CCCCAGGG m7a Disrupted -0.13 -0.13 No effect
hsa-miR-2355-5p ggccctctcCTGGGGATgt
 0 AUCCCCAG m8a (m8a->m7a) -0.149 -0.08 No effect
hsa-miR-4712-3p ggccCTCTCATggggatgt
 0 AAUGAGAG m7b Created no TS 0.054 No effect
hsa-miR-4768-3p ggcccTCTCCTGGggatgt
 0 CCAGGAGA m8a Disrupted -0.015 -0.043 No effect
hsa-miR-665 ggccctCTCCTGGggatgt
 0 ACCAGGAG m7b Disrupted -0.079 no TS 0.37

Mutation Mutation ID Sample Name Cancer Type
chr10:g.44378018G>A COSN6971135 8057714 [pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-4802-3p gggcTCCATGTAgaagcca
 4
 UACAUGGA m8a Disrupted -0.109000 no TS No effect

Mutation Mutation ID Sample Name Cancer Type
chr10:g.44378025G>T COSN6071919 RK128_C01 [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-140-3p gctCTGTGGTctccatgta
 0 UACCACAG m7b (m6c->m7b) no TS -0.104000 -0.240000
hsa-miR-4786-5p gctctgTGGTCTCcatgta
 0 UGAGACCA m7b Created no TS -0.088000 -2.660000
hsa-miR-505-5p gctctgtgGGCTCCatgta
 7
 GGGAGCCA m6b Disrupted -0.148000 no TS 0.440000

Mutation Mutation ID Sample Name Cancer Type
chr10:g.44378544G>T COSN1489836 RK209_C01 [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-4313 gtgggggAGGGGGCcttaa
 2
 AGCCCCCU m7b Disrupted -0.265000 no TS 6.360000

*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.



Germline mutations in target sites of miRNAs in somatic mutation table
Location SNP ID Ancestral
Allele		 Allele miR ID Conservation miRSite FuncClass Validation context+
score change
44377590 rs142102063 C C hsa-miR-4790-5p
1
 cagAAGCGAAaaa
 Disrupted
N
 -0.189
T hsa-miR-335-3p
hsa-miR-5096
1
1
 cagaagTGAAAAA
cagaaGTGAAAAa
 Created
Created
N
N
 0.04
-0.022
44377765 rs17883898 C C hsa-miR-4768-3p
hsa-miR-665
9
22
 ggcccTCTCCTGg
ggccctCTCCTGG
 Disrupted
Disrupted
N
N
 0.028
-0.079
A hsa-miR-1296-5p
hsa-miR-4512
hsa-miR-5191
hsa-miR-6895-5p
hsa-miR-7160-3p
7
7
7
7
7
 GGCCCTAtcctgg
GGCCCTAtcctgg
ggcCCTATCCtgg
GGCCCTAtcctgg
GGCCCTAtcctgg
 Created
Created
Created
Created
Created
N
N
N
N
N
 -0.235
-0.122
-0.034
-0.16
-0.123
44378020 rs144002034 A A hsa-miR-4802-3p
hsa-miR-505-5p
hsa-miR-942-3p
4
7
4
 ggcTCCATGTAga
GGCTCCAtgtaga
ggctCCATGTAga
 Disrupted
Disrupted
Disrupted
N
N
N
 -0.109
-0.148
-0.045
G hsa-miR-602
4
 ggctCCGTGTAga
 Created
N
 -0.121
44378540 rs200377792 - - hsa-miR-4313
hsa-miR-4753-5p
2
2
 gAGGGGGCcttaacc
gagggGGCCTTAacc
 Unknown
Unknown
N
N
 -0.265
-0.007
GG
44378544 rs200544719 G G hsa-miR-4313
hsa-miR-6887-3p
2
2
 ggggAGGGGGCct
ggGGAGGGGgcct
 Disrupted
Disrupted
N
N
 -0.265
-0.17
A hsa-miR-6892-3p
2
 gggGAGAGGGcct
 Created
N
 -0.156
44378544 rs2839694 - - hsa-miR-4313
hsa-miR-6887-3p
2
2
 gggggAGGGGGCctt
gggGGAGGGGgcctt
 Unknown
Unknown
N
N
 0.018
-0.17
AG hsa-miR-6892-3p
2
 ggggGAGAGGGggcctt
 Unknown
N
 -0.133

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