Skip to main content

Table 1 Information about 64 genotyped SNPs in the IL-10, IL18R1, IL1A, IL1B, STAT1, SLC11A1, SP110, IL12B, LTA, TNF, IFNGR1, MBL2, VDR, IL27, CCL2, IL12RB1, IFNGR2, and TLR8

From: Mannose-binding lectin 2 gene polymorphisms and their association with tuberculosis in a Chinese population

Gene: locus and OMIM No.aNo.SNP_IDChromosome No.Chromosome position bIntermarker distances c (bp)Genic locationBase ChangeMAF dPfP value for HWE g testGenotyping rate h(%)
NCBI eControlTuberculosis
IL10: 1q31-q32 OMIN: 1240921rs30244961206 768 5193’UTRT → C0.00970.0510.0490.7300.546799.7
2rs18008711206 773 2894770IntronT → C0.25730.3640.3410.2260.509898.7
3rs18008961206 773 552263IntronA → G0.03400.0920.0920.9640.8843100
IL18R1: 2q12 OMIN: 6044941rs37711672102 369 728IntronT → C0.04850.0350.0350.9020.4203100
2rs19746752102 369 915187IntronC → T0.14560.1360.1260.4350.877399.8
3rs67589362102 374 9094994IntronG → A0.16990.1420.1410.9440.680999.8
4rs67500202102 378 2543345IntronG → A0.48060.4590.4420.3760.135099.6
5rs10351302102 384 9426688Exon 6 F251FG → A0.34950.3170.2990.3010.104599.5
6rs37711582102 393 4348492IntronT → C0.09710.0970.0880.4390.725899.7
IL1A: 2q14 OMIN: 1477601rs175612112 779 646Exon 4 A114SG → T0.06310.1210.0980.0630.882199.6
2rs37835262112 784 2304584IntronA → G0.36890.3510.3670.3740.012999.3
IL1B: 2q14 OMIN: 1477201rs28535502112 829 54445 314IntronC → T0.08250.1110.1120.9130.148799.9
2rs11436332112 832 8903346IntronA → G0.41260.4350.4260.6580.566798.9
3rs11436272112 836 8103920UTR-5T → C0.45630.4970.4890.6850.787897.0
STAT1: 2q32.2 OMIN: 6005551rs22802352190 979 104IntronC → T0.46600.4840.4650.3350.294198.7
2rs168331552190 996 65117 547IntronC → T0.02910.0530.0540.9820.698199.9
3rs130292472191 001 9325281IntronC → T0.50000.4760.4620.4630.072898.8
4rs75769842191 003 8571925IntronC → A0.16500.1670.1600.6470.214099.7
5rs20668022191 009 9416084Exon 1 L21LT → C0.24270.2180.2100.6200.297399.2
SLC11A1: 2q35 OMIN: 6002661rs22766312218 384 290Exon 2 F66FG → A0.14080.1440.1490.6650.383499.2
2rs172219592218 387 9073617Exon 7 G249GC → T0.10680.0990.1120.2950.984295.4
3rs172354092218 395 0097102Exon 14 D543NG → A0.14080.1380.1250.3110.552999.1
SP110: 2q37.1 OMIN: 6044571rs97839922230 170 873IntronT → C0.00490.0020.0020.9890.964599.9
2rs101656852230 174 8824009IntronG → A0.12620.1590.1570.8450.698199.8
3rs9576832230 178 6603778IntronT → C0.37380.4560.4450.5660.151698.7
4rs413453442230 200 21221 552IntronC → G0.27180.1700.1850.3220.437498.5
5rs13657762230 207 9947781Exon 7 G305RA → G0.10680.1260.1140.3510.418499.6
IL12B: 5q31.1-q33.1 OMIN: 1615611rs13684395159 315 0063’URTT → G0.00970.0040.0030.4960.928999.8
2rs9197665159 320 5565550IntronA → C0.04370.0520.0530.9010.7283100
3rs32122175159 328 1227566IntronG → C0.44170.4550.4270.1450.176199.6
4rs25468925159 328 467345IntronG → A0.18450.1860.2120.1010.883996.5
LTA: 6p21.3 OMIN: 1534401rs2009658631 570 467IntronC → G0.18450.1440.1710.0570.374199.4
2rs1800683631 572 29418275’UTRG → A0.41750.4380.4200.3420.583198.7
3rs2229094631 572 779485Exon 1 C13RT → C0.22820.1900.2290.0150.173299.3
4rs2229092631 572 980201Exon 2 H51PA → C0.02430.0210.0240.6310.087199.9
5rs1041981631 573 00727Exon 2 T60NC → A0.41750.4370.4190.3490.654599.0
TNF: 6p21.3 OMIN: 1911601rs1800629631 575 2542247IntronG → A0.09220.0540.0690.1000.173599.5
2rs3093662631 576 4121158IntronA → G0.03400.0380.0480.1830.727699.3
IFNGR1: 6q23.3 OMIN: 1074701rs18874156137 198 101Exon 7 L467PT → C0.01940.0290.0310.7430.505699.7
 2rs22347116137 219 38321 2825’UTRC → T0.47570.4530.4480.8110.233699.3
MBL2: 10q11.2 OMIN: 1545451rs20999021052 766 0893’UTRT → C0.26700.1980.2550.0010.438699.3
2rs9305071052 768 5062417Exon 4 L126LC → G0.24270.1910.2370.0040.899297.1
3rs108247931052 769 7201214IntronA → G0.33980.2850.3360.0040.996699.9
4rs79165821052 773 2353515IntronT → C0.14560.1110.1260.2320.694999.6
VDR: 12q13.11 OMIN: 6017691rs22391841247 850 800IntronC → T0.29130.2790.2710.6370.875399.8
2rs22480981247 859 5738773IntronT → C0.26210.2920.2810.5190.202899.7
3rs15403391247 863 5433970IntronA → G0.26700.2890.3160.1240.371599.7
4rs107832191247 901 70538 162IntronA → T0.41750.4330.4650.1100.411994.3
5rs71391661247 906 5514846IntronC → G0.02430.0280.0270.8520.522199.9
IL27: 16p11 OMIN: 6082731rs1812061628 502 082Exon 4 L119RT → C0.14560.1360.1290.6210.384499.0
CCL2: 17q11.2-q12 OMIN: 1581051rs45861634 256 250Exon 2 C35CC → T0.36410.4120.3800.0920.951899.1
IL12RB1: 19p13.1 OMIN: 6016041rs23057401918 069 426IntronA → G0.09220.1360.1100.0400.788099.9
2rs4015021918 069 603177Exon 11 G378RC → G0.33500.3690.3440.1860.533499.8
3rs3759471918 069 64138Exon 11 M365TA → G0.33500.3680.3420.1640.475599.5
4rs178526351918 075 7656124Exon 7 P228PG → A0.33500.3680.3320.0550.615299.1
5rs115759341918 075 80843Exon 7 Q214RA → G0.33500.3750.3390.0510.966898.8
IFNGR2: 21q22.11 OMIN: 1475691rs10592932133 437 3863’URTT → C0.15530.1210.1140.5780.017999.5
TLR8: Xp22 OMIN: 3003661rs3764880X12 906 707Exon 1 M1VG → A0.17780.1530.1550.91799.5
2rs5744068X12 916 93910 232IntronC → T0.22500.0170.0190.66799.9
3rs2159377X12 919 3942455Exon 2 D136DT → C0.28130.2100.2050.77199.3
4rs5744080X12 919 685291Exon 2 H233QT → C0.23130.1940.1840.50499.7
5rs2407992X12 920 9931308Exon 2 L669LC → G0.22500.1900.1770.37999.1
6rs3747414X12 921 293300Exon 2 I769IA → C0.32210.1960.1770.22599.0
7rs5744088X12 922 44511523’URTG → C0.05000.0250.0240.95898.9
  1. aOMIM, Online Mendelian Inheritance in Man (http://www.ncbi.nlm.nih.gov/Omim)
  2. bSNP position in the NCBI dbSNP database (http://www.ncbi.nlm.nih.gov/SNP)
  3. cIntermarker distances, the distance between two adjacent SNP sites on the same gene sequence. The intermarker distance of first SNP was showed as “——”
  4. dMAF, minor allele frequency
  5. eMAF for Chinese in the NCBI dbSNPs database
  6. fP value for difference in allele distributions between tuberculosis and control group
  7. gHWE Hardy-Weinberg equilibrium in the control group
  8. hGenotyping Rate, rate of actual genotyping samples to total samples
  9. -: Not applicable