pre-miRNA Information
pre-miRNA hsa-mir-1245a   
Genomic Coordinates chr2: 188978092 - 188978161
Description Homo sapiens miR-1245a stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-1245a
Sequence 45| AAGUGAUCUAAAGGCCUACAU |65
Evidence Experimental
Experiments Illumina
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN31562560 15 COSMIC
COSN26581044 19 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs906938680 2 dbSNP
rs1159117523 3 dbSNP
rs780486044 6 dbSNP
rs771479866 17 dbSNP
rs1002976932 18 dbSNP
rs1428029219 19 dbSNP
Putative Targets

Gene Information
Gene Symbol NFKBID   
Synonyms IkappaBNS, TA-NFKBH
Description NFKB inhibitor delta
Transcript NM_139239   
Expression
Putative miRNA Targets on NFKBID
3'UTR of NFKBID
(miRNA target sites are highlighted)
>NFKBID|NM_139239|3'UTR
   1 GACTCAAACCCAGACCCTGGACTGATTTTCCAGTCCCCACCGTCCTGCGGGACAGCCAGCGTATGCTAATGTTGCAAACC
  81 CATGATAATGTATGTGGAATATCCTGCCATTGGGGTTTTACATTAAAACCCCAGAATGGCTGCAGAGGGGTGAACAGGCC
 161 CCAATATTTGGGGTGCTGTGATACCCCTCTTCTACCCACAAGGAGCCCTCTTGATGATTTCTGTGAAATCGAGGCCCCTT
 241 GATTGTTTCTGTGAAACACCCTGCACCCCTAGTCCTTTCCCCACTGAGATCTTTCGGGTTCTCTCCCCTAACTCAGCTCT
 321 TCGTTCCCAGAAACCCAGATGTAATCCCCCTACGTGGTGCTTGGGGCATCCCGATACCATCTCAGTAAATCTCCTACAAT
 401 GGCCTCCTCACCCTCCCCGGGACCCACACCCTTCAGGTCCTCACCCTGAGACAGGAGGGACCCTCTGAGATCAGGGACCC
 481 TTAGGTCTCACTGCTCTCTGATTCAGAGCTCAGCTGGGCCCCCAGTTCCAGACCCCAGCATTCCCGGTCACTCCCTCCCT
 561 AATCTGAGCATCACTCAAGCTCTTTATTAAACTCAATTTGGGCCAGAAAAAAAAAAAAAAAAAA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions
(Predicted by miRanda)
ID Duplex structure Position Score MFE
1
miRNA  3' uacaucCGGAA-AUCUAGUGAa 5'
                || ||   |:||||| 
Target 5' accccaGCATTCCCGGTCACTc 3'
532 - 553 127.00 -7.80
2
miRNA  3' uacauccggaaaucUAGUGAa 5'
                        |||||| 
Target 5' tccctaatctgagcATCACTc 3'
556 - 576 120.00 -7.10
3
miRNA  3' uaCAUCC---GGA-AAUCUAGUgaa 5'
            | |||   ||| | ||||||   
Target 5' caGGAGGGACCCTCTGAGATCAggg 3'
452 - 476 119.00 -10.22
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN32059370 24 COSMIC
COSN28869832 48 COSMIC
COSN30171978 70 COSMIC
COSN31559699 90 COSMIC
COSN31606136 160 COSMIC
COSN31932669 201 COSMIC
COSN1214860 204 COSMIC
COSN20254911 289 COSMIC
COSN31529401 291 COSMIC
COSN26568331 306 COSMIC
COSN26565132 312 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1364871559 2 dbSNP
rs374906765 5 dbSNP
rs968537795 6 dbSNP
rs1330698305 8 dbSNP
rs1020498541 16 dbSNP
rs934333366 30 dbSNP
rs1167973867 38 dbSNP
rs757828050 40 dbSNP
rs912278792 40 dbSNP
rs762279046 41 dbSNP
rs372099760 48 dbSNP
rs774877906 49 dbSNP
rs1257282403 56 dbSNP
rs1456391686 58 dbSNP
rs769263241 60 dbSNP
rs1256478534 66 dbSNP
rs1201660656 82 dbSNP
rs1432215771 83 dbSNP
rs545509094 86 dbSNP
rs559877784 87 dbSNP
rs1477893752 89 dbSNP
rs1016279909 92 dbSNP
rs1035587245 94 dbSNP
rs1001481358 97 dbSNP
rs1463499854 100 dbSNP
rs533411201 110 dbSNP
rs1332685186 112 dbSNP
rs572122362 129 dbSNP
rs1298082210 133 dbSNP
rs35209671 135 dbSNP
rs1228941037 137 dbSNP
rs1276421870 139 dbSNP
rs896489041 149 dbSNP
rs1315935955 161 dbSNP
rs1330883644 164 dbSNP
rs1265782966 177 dbSNP
rs1488075762 178 dbSNP
rs1035030986 185 dbSNP
rs1037744020 187 dbSNP
rs1002283953 191 dbSNP
rs61278168 192 dbSNP
rs1488414137 195 dbSNP
rs562876854 196 dbSNP
rs1420862595 202 dbSNP
rs1426050433 204 dbSNP
rs1166158332 206 dbSNP
rs1006268618 207 dbSNP
rs886532372 208 dbSNP
rs1243847490 218 dbSNP
rs1399654028 225 dbSNP
rs1044239131 230 dbSNP
rs1357497989 231 dbSNP
rs1335175894 232 dbSNP
rs1229959634 234 dbSNP
rs1313427337 236 dbSNP
rs1321059357 239 dbSNP
rs748821594 249 dbSNP
rs1452358049 260 dbSNP
rs374580567 261 dbSNP
rs1386551908 266 dbSNP
rs147692591 267 dbSNP
rs1353909423 271 dbSNP
rs573893096 274 dbSNP
rs1215506087 275 dbSNP
rs1039250967 281 dbSNP
rs1053452363 284 dbSNP
rs1414886789 295 dbSNP
rs558477099 296 dbSNP
rs1160773526 318 dbSNP
rs1381372917 319 dbSNP
rs1472708273 322 dbSNP
rs978400594 323 dbSNP
rs541795000 340 dbSNP
rs1360954836 346 dbSNP
rs1448781356 348 dbSNP
rs1302335418 351 dbSNP
rs1378295055 352 dbSNP
rs755825906 353 dbSNP
rs147046822 354 dbSNP
rs989027213 356 dbSNP
rs1238969780 364 dbSNP
rs540051108 372 dbSNP
rs1313596258 373 dbSNP
rs1210163044 378 dbSNP
rs1254925282 390 dbSNP
rs921412472 392 dbSNP
rs550116216 396 dbSNP
rs572693158 396 dbSNP
rs750160187 403 dbSNP
rs1439534827 404 dbSNP
rs963219805 409 dbSNP
rs1016237879 410 dbSNP
rs1427445273 411 dbSNP
rs908760977 418 dbSNP
rs141500307 419 dbSNP
rs1356870952 422 dbSNP
rs960738712 423 dbSNP
rs371950418 430 dbSNP
rs775425433 435 dbSNP
rs1002231724 436 dbSNP
rs539125958 442 dbSNP
rs1277588998 445 dbSNP
rs575166846 448 dbSNP
rs1219497129 452 dbSNP
rs769972184 453 dbSNP
rs556932275 454 dbSNP
rs1201062909 455 dbSNP
rs78171290 461 dbSNP
rs1457717468 463 dbSNP
rs1197094256 468 dbSNP
rs567952245 475 dbSNP
rs1478464010 478 dbSNP
rs1190867921 480 dbSNP
rs376784533 481 dbSNP
rs538012384 481 dbSNP
rs549371788 509 dbSNP
rs1053037950 513 dbSNP
rs1400892962 513 dbSNP
rs943585263 516 dbSNP
rs113203769 517 dbSNP
rs1405065273 521 dbSNP
rs1436748297 525 dbSNP
rs1292648234 530 dbSNP
rs1343274492 533 dbSNP
rs999212737 537 dbSNP
rs1391914984 540 dbSNP
rs890782109 545 dbSNP
rs1278308875 549 dbSNP
rs1317790723 558 dbSNP
rs1050771737 561 dbSNP
rs1389213900 565 dbSNP
rs1188619452 576 dbSNP
rs932322891 596 dbSNP
rs1245139638 600 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' uacauccggaaaUCUAGUGAa 5'
                      :||||||| 
Target 5' ----------gcGGAUCACUu 3'
1 - 11
Article - Karginov FV; Hannon GJ
- Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
CLIP-seq Support 1 for dataset GSM1084065
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_AbnovaAb
Location of target site ENST00000396901.1 | 3UTR | GCGGAUCACUUGAGGUGAGGAGUUUGAGACCAGCCUGGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
BRCA -0.816 0.2 -1.000 0.5 3 Click to see details
BLCA 0.678 0.26 0.500 0.33 3 Click to see details
HNSC 0.261 0.29 0.536 0.11 7 Click to see details
UCEC 0.24 0.42 0.500 0.33 3 Click to see details
UCEC 0.24 0.42 0.500 0.33 3 Click to see details
UCEC 0.24 0.42 0.500 0.33 3 Click to see details
UCEC 0.24 0.42 0.500 0.33 3 Click to see details
UCEC 0.24 0.42 0.500 0.33 3 Click to see details
109 hsa-miR-1245a Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT006574 BRCA2 BRCA2, DNA repair associated 2 1
MIRT055432 SHOC2 SHOC2, leucine rich repeat scaffold protein 2 2
MIRT063879 RASSF8 Ras association domain family member 8 2 6
MIRT077025 WIPF2 WAS/WASL interacting protein family member 2 2 2
MIRT095775 GRPEL2 GrpE like 2, mitochondrial 2 10
MIRT099172 MAP3K4 mitogen-activated protein kinase kinase kinase 4 2 2
MIRT175616 OCRL OCRL, inositol polyphosphate-5-phosphatase 2 2
MIRT456518 LYPLAL1 lysophospholipase like 1 2 2
MIRT464457 UGCG UDP-glucose ceramide glucosyltransferase 2 2
MIRT465747 TMPPE transmembrane protein with metallophosphoesterase domain 2 2
MIRT468257 SFXN4 sideroflexin 4 2 2
MIRT469216 RICTOR RPTOR independent companion of MTOR complex 2 2 2
MIRT472045 NPAT nuclear protein, coactivator of histone transcription 2 2
MIRT481795 APEX1 apurinic/apyrimidinic endodeoxyribonuclease 1 2 2
MIRT500154 CREBBP CREB binding protein 2 2
MIRT506514 MSANTD4 Myb/SANT DNA binding domain containing 4 with coiled-coils 2 4
MIRT506915 KBTBD8 kelch repeat and BTB domain containing 8 2 6
MIRT513901 GRB10 growth factor receptor bound protein 10 2 6
MIRT519128 ALDH2 aldehyde dehydrogenase 2 family (mitochondrial) 2 2
MIRT528121 FOXH1 forkhead box H1 2 2
MIRT528942 SFMBT2 Scm like with four mbt domains 2 2 2
MIRT540580 CEP89 centrosomal protein 89 2 2
MIRT545858 ZNF264 zinc finger protein 264 2 4
MIRT547147 PGM3 phosphoglucomutase 3 2 2
MIRT547434 MED4 mediator complex subunit 4 2 2
MIRT554650 ROBO1 roundabout guidance receptor 1 2 2
MIRT558524 CSRNP3 cysteine and serine rich nuclear protein 3 2 2
MIRT559762 ABHD5 abhydrolase domain containing 5 2 2
MIRT560438 GOLGA7B golgin A7 family member B 2 2
MIRT561974 LRRC59 leucine rich repeat containing 59 2 2
MIRT562442 DDIT4 DNA damage inducible transcript 4 2 2
MIRT563489 ZWINT ZW10 interacting kinetochore protein 2 2
MIRT568265 BMP2K BMP2 inducible kinase 2 2
MIRT572522 KIAA0232 KIAA0232 2 2
MIRT612801 LSM14A LSM14A, mRNA processing body assembly factor 2 2
MIRT621533 ZNF507 zinc finger protein 507 2 2
MIRT625205 GSTCD glutathione S-transferase C-terminal domain containing 2 2
MIRT625615 ZNF84 zinc finger protein 84 2 2
MIRT629215 C12orf66 chromosome 12 open reading frame 66 2 2
MIRT629509 AS3MT arsenite methyltransferase 2 2
MIRT629769 STK25 serine/threonine kinase 25 2 2
MIRT630908 GATAD1 GATA zinc finger domain containing 1 2 2
MIRT632508 RAB13 RAB13, member RAS oncogene family 2 2
MIRT636871 ARSE arylsulfatase E (chondrodysplasia punctata 1) 2 2
MIRT637106 CXorf23 BCLAF1 and THRAP3 family member 3 2 2
MIRT637332 FAM9B family with sequence similarity 9 member B 2 2
MIRT637553 CHST6 carbohydrate sulfotransferase 6 2 2
MIRT637639 ZNF431 zinc finger protein 431 2 2
MIRT637836 CACNG8 calcium voltage-gated channel auxiliary subunit gamma 8 2 2
MIRT638326 RNF11 ring finger protein 11 2 2
MIRT638393 RAB11FIP1 RAB11 family interacting protein 1 2 2
MIRT642450 CLUAP1 clusterin associated protein 1 2 2
MIRT642616 APOPT1 apoptogenic 1, mitochondrial 2 2
MIRT643133 FAM71F2 family with sequence similarity 71 member F2 2 2
MIRT644324 NFKBID NFKB inhibitor delta 2 2
MIRT645150 DIS3 DIS3 homolog, exosome endoribonuclease and 3'-5' exoribonuclease 2 2
MIRT645673 ADK adenosine kinase 2 2
MIRT646091 MGST3 microsomal glutathione S-transferase 3 2 2
MIRT646858 SLC35E4 solute carrier family 35 member E4 2 2
MIRT650153 ZNF426 zinc finger protein 426 2 2
MIRT652483 TMEM181 transmembrane protein 181 2 2
MIRT653790 SIRPA signal regulatory protein alpha 2 2
MIRT655526 PAG1 phosphoprotein membrane anchor with glycosphingolipid microdomains 1 2 2
MIRT657077 JPH2 junctophilin 2 2 2
MIRT657322 HOOK3 hook microtubule tethering protein 3 2 2
MIRT662036 FUT2 fucosyltransferase 2 2 2
MIRT662322 ADM2 adrenomedullin 2 2 2
MIRT663211 DARS2 aspartyl-tRNA synthetase 2, mitochondrial 2 2
MIRT663559 CCR6 C-C motif chemokine receptor 6 2 2
MIRT663937 ZNF554 zinc finger protein 554 2 2
MIRT664689 EIF2B2 eukaryotic translation initiation factor 2B subunit beta 2 2
MIRT664709 PAICS phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase 2 2
MIRT665291 ZFP14 ZFP14 zinc finger protein 2 2
MIRT665572 TXNL1 thioredoxin like 1 2 2
MIRT667068 PAOX polyamine oxidase 2 2
MIRT667304 MYO5A myosin VA 2 2
MIRT667442 METTL14 methyltransferase like 14 2 2
MIRT668048 GTPBP10 GTP binding protein 10 2 2
MIRT669604 AGO3 argonaute 3, RISC catalytic component 2 2
MIRT671088 ABL2 ABL proto-oncogene 2, non-receptor tyrosine kinase 2 2
MIRT674361 SLC35E3 solute carrier family 35 member E3 2 2
MIRT674962 ORAI2 ORAI calcium release-activated calcium modulator 2 2 2
MIRT676394 SEC24D SEC24 homolog D, COPII coat complex component 2 2
MIRT676819 AGMAT agmatinase 2 2
MIRT676891 ENSA endosulfine alpha 2 2
MIRT677059 ZNF34 zinc finger protein 34 2 2
MIRT678424 ANKRD36 ankyrin repeat domain 36 2 2
MIRT678735 SRCAP Snf2 related CREBBP activator protein 2 2
MIRT678930 XPOT exportin for tRNA 2 2
MIRT678954 MYADM myeloid associated differentiation marker 2 2
MIRT679228 MAN2A2 mannosidase alpha class 2A member 2 2 2
MIRT679765 TLR6 toll like receptor 6 2 2
MIRT681992 HRH4 histamine receptor H4 2 2
MIRT687405 NSUN4 NOP2/Sun RNA methyltransferase family member 4 2 2
MIRT694570 RBMXL1 RNA binding motif protein, X-linked like 1 2 2
MIRT698449 TM4SF1 transmembrane 4 L six family member 1 2 2
MIRT706406 HAS2 hyaluronan synthase 2 2 2
MIRT706582 ZNF432 zinc finger protein 432 2 2
MIRT706838 VHLL VHL like 2 2
MIRT706909 DVL3 dishevelled segment polarity protein 3 2 2
MIRT707052 TRPV2 transient receptor potential cation channel subfamily V member 2 2 2
MIRT708583 C11orf54 chromosome 11 open reading frame 54 2 2
MIRT708988 CABP4 calcium binding protein 4 2 2
MIRT713041 ADRA2B adrenoceptor alpha 2B 2 2
MIRT713731 SUCO SUN domain containing ossification factor 2 2
MIRT714968 RAB21 RAB21, member RAS oncogene family 2 2
MIRT717485 PDE4DIP phosphodiesterase 4D interacting protein 2 2
MIRT722826 KLK2 kallikrein related peptidase 2 2 2
MIRT723305 MOGAT1 monoacylglycerol O-acyltransferase 1 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-1245a Trametinib 11707110 NSC758246 approved resistant High Melanoma cell line (M14) (500nM)
hsa-miR-1245a Vemurafenib 42611257 NSC761431 approved resistant High Melanoma cell line (M14) (500nM)
hsa-miR-1245a Trametinib 11707110 NSC758246 approved resistant High Melanoma cell line (M14) (1uM)
hsa-miR-1245a Vemurafenib 42611257 NSC761431 approved resistant High Melanoma cell line (M14) (1uM)
hsa-miR-1245a Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-1245a Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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