pre-miRNA Information
pre-miRNA hsa-mir-3622a   
Genomic Coordinates chr8: 27701677 - 27701759
Description Homo sapiens miR-3622a stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3622a-5p
Sequence 14| CAGGCACGGGAGCUCAGGUGAG |35
Evidence Experimental
Experiments Illumina
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 2 8 + 27701691 29233923 MiREDiBase
A-to-I 6 8 + 27701695 29233923 MiREDiBase
A-to-I 16 8 + 27701705 28550310, 29233923 MiREDiBase
A-to-I 21 8 + 27701710 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs551845360 1 dbSNP
rs946438979 3 dbSNP
rs1044808718 7 dbSNP
rs66683138 8 dbSNP
rs1157333896 10 dbSNP
rs1439657384 12 dbSNP
rs530939348 17 dbSNP
rs1232922758 20 dbSNP
rs1448152954 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol DSN1   
Synonyms C20orf172, KNL3, MIS13, dJ469A13.2, hKNL-3
Description DSN1 homolog, MIS12 kinetochore complex component
Transcript NM_001145315   
Other Transcripts NM_001145316 , NM_001145317 , NM_001145318 , NM_024918   
Expression
Putative miRNA Targets on DSN1
3'UTR of DSN1
(miRNA target sites are highlighted)
>DSN1|NM_001145315|3'UTR
   1 CTTTATGAGAGTTTCTGCCACAAGGTGCCCAAGAGGAGAGGAATGGGAAGAGTGCCCCAGCACGTGGTGACTGCGTGATT
  81 TCTGCTCGTTGCCTTTGAAGATAACTGGCAGGACTGACTGTAGAACACTTTGACTTTTTTCAAAAAGTGATGGAATTTGT
 161 ACATCCAAATGAATATTGTATAGACAATTTTCCCAGGAATGTGCAAAATGCTTGAAAGTTCAAACTTCTTTTTTGAAATG
 241 ATCTTCAGATCCAGTGGCCCATTCTTTTATCTTTATCCTGTGAAGGTGTTTTTCAGGTTTTGAAACAATCCAAAAATCAT
 321 TTAGGACCAAGTCTAAGGAAACATTTTAGTGGCCAAGTTGGATTCCGATTGTAAAGGAATGATACTAATTTTCTAGCATG
 401 GCTCTGAAGGTGATTTTAGGTAGAAGAGTTTTGAGGCTGGGCGCAATGGCTCACGCCTGTAATCCTAGCATTTTGGGTGA
 481 CTGAGGCGGGTGGATTGCTTGAGCCCAGAAGTTGAAGACCAGCCTGAGAAATAAGGTGAAACCCTGTCTACAAAAAATAC
 561 AAAAAGTTAGCTGGGTGTGGTGGCGTGTGCCTGTAGTGCTAGCTACTCAGAAGGCTGAGGTGGGAGGATTGTTTGAGCCC
 641 AGGAGGTTGAGGCTGCAGTGAGTTCTAATTGCGCCACTGCACTCCAGCCTGAGCGACAGAGTGAGACACTGTCTTAAAAA
 721 AAATTAAAAATTGTAAAAAAATGAAAAAAAAAGTTTTGAGCATTATTTGCATCATTGGGATACATATGTCACTTCACAAG
 801 ATGTTCAATTTGAAGGAAATACCACTCATTCTCTATGTCCTGTTGTCTGTAGTGTGCTTCAGTTTTTCATATTGAGTTGA
 881 CCTAAATCCTGGATTCATGACAAGAAAGGAGTAAGTACTACTATTCATTGTTCTATTTGTTTATAATCTGTATTATAAAA
 961 TTGCACATAATTAAAAGCTTTCCCTTGTCTTCATCTA
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' gaGUGGACUCG----A--GGGCACGGAc 5'
            :| |||:|:    |  | :|||||| 
Target 5' gtTAGCTGGGTGTGGTGGCGTGTGCCTg 3'
566 - 593 132.00 -23.20
2
miRNA  3' gaGUGGACUCGA---GGGC-ACGGAc 5'
            ::| ||| :|   |:|| ||||| 
Target 5' acTGCGTGATTTCTGCTCGTTGCCTt 3'
70 - 95 124.00 -15.10
3
miRNA  3' gaguGGACUCGAGG----GCACGGAc 5'
              ||||   ||:    :||||:| 
Target 5' atgtCCTGTTGTCTGTAGTGTGCTTc 3'
835 - 860 116.00 -14.67
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30145891 15 COSMIC
COSN30456281 57 COSMIC
COSN30506982 64 COSMIC
COSN30185756 69 COSMIC
COSN30183344 82 COSMIC
COSN31599316 87 COSMIC
COSN30171530 97 COSMIC
COSN16084785 183 COSMIC
COSN23574401 194 COSMIC
COSN7090299 221 COSMIC
COSN19029197 364 COSMIC
COSN15817520 381 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs536379032 4 dbSNP
rs900680665 7 dbSNP
rs1302432119 15 dbSNP
rs756963497 20 dbSNP
rs753437238 23 dbSNP
rs372728206 29 dbSNP
rs1193076820 35 dbSNP
rs1443449492 38 dbSNP
rs755656856 45 dbSNP
rs1382417964 46 dbSNP
rs1480870956 52 dbSNP
rs1043253721 56 dbSNP
rs947651081 63 dbSNP
rs1464306768 64 dbSNP
rs1302054960 65 dbSNP
rs1485680960 74 dbSNP
rs1259113740 75 dbSNP
rs777337216 87 dbSNP
rs912872807 88 dbSNP
rs1223727781 91 dbSNP
rs1302875883 101 dbSNP
rs974493791 109 dbSNP
rs758946908 123 dbSNP
rs77399897 125 dbSNP
rs1231346264 132 dbSNP
rs928368198 135 dbSNP
rs553098340 147 dbSNP
rs1356870188 163 dbSNP
rs1251170240 179 dbSNP
rs138062724 181 dbSNP
rs62208060 182 dbSNP
rs189424374 186 dbSNP
rs565077146 187 dbSNP
rs1290213950 191 dbSNP
rs549850112 215 dbSNP
rs1020473020 218 dbSNP
rs1175061938 224 dbSNP
rs973957649 225 dbSNP
rs960037939 226 dbSNP
rs961610358 230 dbSNP
rs1369885721 243 dbSNP
rs1436488317 251 dbSNP
rs199914954 256 dbSNP
rs367833837 261 dbSNP
rs754090494 275 dbSNP
rs1389841102 277 dbSNP
rs1001594663 278 dbSNP
rs905937611 285 dbSNP
rs1015534830 286 dbSNP
rs569695133 292 dbSNP
rs1016147670 303 dbSNP
rs78017147 313 dbSNP
rs1226819946 318 dbSNP
rs529759562 323 dbSNP
rs886385588 329 dbSNP
rs1047651351 334 dbSNP
rs1263806313 349 dbSNP
rs932992476 351 dbSNP
rs146919614 366 dbSNP
rs1039200931 367 dbSNP
rs1451031979 379 dbSNP
rs1186447693 388 dbSNP
rs547921340 400 dbSNP
rs925021109 415 dbSNP
rs1166269412 429 dbSNP
rs1030333927 439 dbSNP
rs1347654838 442 dbSNP
rs996223499 443 dbSNP
rs532605300 445 dbSNP
rs947543245 446 dbSNP
rs1427933099 449 dbSNP
rs913497491 452 dbSNP
rs900649479 454 dbSNP
rs565231650 455 dbSNP
rs1230569237 459 dbSNP
rs1310655667 466 dbSNP
rs1021764740 468 dbSNP
rs1270172679 472 dbSNP
rs1463735322 482 dbSNP
rs1252125467 487 dbSNP
rs1206533879 488 dbSNP
rs937710304 491 dbSNP
rs1247241638 495 dbSNP
rs1473069316 521 dbSNP
rs1011768786 522 dbSNP
rs184199274 524 dbSNP
rs1410982508 525 dbSNP
rs1422670833 535 dbSNP
rs1159265551 544 dbSNP
rs1390336510 549 dbSNP
rs1455339024 555 dbSNP
rs980509384 562 dbSNP
rs1360175013 566 dbSNP
rs1265889580 568 dbSNP
rs970194096 575 dbSNP
rs1016344557 577 dbSNP
rs1379080973 578 dbSNP
rs1226078988 580 dbSNP
rs148827327 585 dbSNP
rs1053409057 589 dbSNP
rs1435328626 601 dbSNP
rs1283293709 605 dbSNP
rs938347046 613 dbSNP
rs950509024 615 dbSNP
rs1235603870 627 dbSNP
rs1482905903 635 dbSNP
rs1182212116 636 dbSNP
rs1413580400 648 dbSNP
rs1471401722 651 dbSNP
rs906872094 655 dbSNP
rs1325682693 657 dbSNP
rs760937275 667 dbSNP
rs1439074181 672 dbSNP
rs6102084 673 dbSNP
rs764999138 675 dbSNP
rs1294616497 680 dbSNP
rs1359041803 691 dbSNP
rs919735312 694 dbSNP
rs1309902809 696 dbSNP
rs1348781101 703 dbSNP
rs973883828 708 dbSNP
rs901749653 710 dbSNP
rs1170769754 711 dbSNP
rs1276275370 713 dbSNP
rs939898530 716 dbSNP
rs1038736861 724 dbSNP
rs908452292 724 dbSNP
rs879079129 726 dbSNP
rs986738623 731 dbSNP
rs191234301 733 dbSNP
rs1030301287 742 dbSNP
rs1246885916 742 dbSNP
rs75726820 743 dbSNP
rs974772397 751 dbSNP
rs1171104643 753 dbSNP
rs1478818775 753 dbSNP
rs531501841 753 dbSNP
rs913369554 753 dbSNP
rs947574507 753 dbSNP
rs371933156 754 dbSNP
rs1053211315 758 dbSNP
rs759370998 761 dbSNP
rs1324323683 771 dbSNP
rs572475582 780 dbSNP
rs928865232 787 dbSNP
rs980156218 788 dbSNP
rs970435507 797 dbSNP
rs1228880701 803 dbSNP
rs1275262 808 dbSNP
rs1340009973 812 dbSNP
rs1194688183 825 dbSNP
rs1300730268 833 dbSNP
rs759494462 833 dbSNP
rs1452942453 835 dbSNP
rs1021690955 844 dbSNP
rs1012149050 846 dbSNP
rs534777130 849 dbSNP
rs1231603208 852 dbSNP
rs1252748650 856 dbSNP
rs577009931 868 dbSNP
rs892005959 870 dbSNP
rs1450417719 872 dbSNP
rs1032304395 873 dbSNP
rs750534890 875 dbSNP
rs1003135714 879 dbSNP
rs1026185497 882 dbSNP
rs11473416 884 dbSNP
rs1393023413 884 dbSNP
rs1403798472 888 dbSNP
rs906840973 902 dbSNP
rs150160659 903 dbSNP
rs1394907229 904 dbSNP
rs1435488736 921 dbSNP
rs1299572564 930 dbSNP
rs948392582 936 dbSNP
rs1226653050 940 dbSNP
rs898234957 950 dbSNP
rs1284269391 956 dbSNP
rs1357924457 961 dbSNP
rs1038157782 963 dbSNP
rs1207565990 982 dbSNP
rs1272073075 989 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 GSM1084047. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep4 HITS-CLIP data was present in GSM1084072. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep1_AbnovaAb ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' gagUGGACUCGAGGGCACGGAc 5'
             :| |||||  |||||||| 
Target 5' cagGCGUGAGCCACCGUGCCUg 3'
6 - 27
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 GSM1084047
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep4
Location of target site ENST00000426836.1 | 3UTR | GGAUUACAGGCGUGAGCCACCGUGCCUGGCCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1084072
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_nohippuristanol_rep1_AbnovaAb
Location of target site ENST00000426836.1 | 3UTR | GAUUACAGGCGUGAGCCACCGUGCCUGGCCU
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
THCA -0.12 0.39 0.048 0.46 8 Click to see details
THCA -0.12 0.39 0.048 0.46 8 Click to see details
THCA -0.12 0.39 0.048 0.46 8 Click to see details
THCA -0.12 0.39 0.048 0.46 8 Click to see details
THCA -0.12 0.39 0.048 0.46 8 Click to see details
THCA -0.12 0.39 0.048 0.46 8 Click to see details
THCA -0.12 0.39 0.048 0.46 8 Click to see details
61 hsa-miR-3622a-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT166678 ZSWIM6 zinc finger SWIM-type containing 6 2 2
MIRT452081 ATP6V0B ATPase H+ transporting V0 subunit b 2 2
MIRT457039 S1PR3 sphingosine-1-phosphate receptor 3 2 2
MIRT471975 NR3C1 nuclear receptor subfamily 3 group C member 1 2 2
MIRT474065 LMNB2 lamin B2 2 2
MIRT475862 H6PD hexose-6-phosphate dehydrogenase/glucose 1-dehydrogenase 2 2
MIRT476191 GOLGA8A golgin A8 family member A 2 2
MIRT476521 GABRB1 gamma-aminobutyric acid type A receptor beta1 subunit 2 2
MIRT483046 C15orf52 chromosome 15 open reading frame 52 2 4
MIRT495541 EIF3H eukaryotic translation initiation factor 3 subunit H 2 2
MIRT495892 CLOCK clock circadian regulator 2 2
MIRT495992 LTBP2 latent transforming growth factor beta binding protein 2 2 2
MIRT496001 EMP1 epithelial membrane protein 1 2 2
MIRT496208 PLEKHG2 pleckstrin homology and RhoGEF domain containing G2 2 2
MIRT496427 ACTRT3 actin related protein T3 2 2
MIRT496438 ZNF704 zinc finger protein 704 2 2
MIRT496473 SDE2 SDE2 telomere maintenance homolog 2 2
MIRT496555 TBX15 T-box 15 2 2
MIRT497202 CECR1 adenosine deaminase 2 2 2
MIRT507632 CREBZF CREB/ATF bZIP transcription factor 2 2
MIRT513377 MGAT4A mannosyl (alpha-1,3-)-glycoprotein beta-1,4-N-acetylglucosaminyltransferase, isozyme A 2 2
MIRT523460 GOLGA8J golgin A8 family member J 2 2
MIRT523465 GOLGA8I golgin A8 family member I, pseudogene 1 1
MIRT526049 GMDS GDP-mannose 4,6-dehydratase 2 2
MIRT533122 YIPF4 Yip1 domain family member 4 2 2
MIRT534183 SLC8A1 solute carrier family 8 member A1 2 2
MIRT556618 LCOR ligand dependent nuclear receptor corepressor 2 2
MIRT563361 WHSC1 nuclear receptor binding SET domain protein 2 2 2
MIRT563868 FAM206A family with sequence similarity 206 member A 2 2
MIRT564360 PPWD1 peptidylprolyl isomerase domain and WD repeat containing 1 2 2
MIRT564661 ZNF449 zinc finger protein 449 2 2
MIRT564805 ZBTB33 zinc finger and BTB domain containing 33 2 2
MIRT564867 ZBED3 zinc finger BED-type containing 3 2 2
MIRT565340 TMEM104 transmembrane protein 104 2 2
MIRT566439 PHF16 jade family PHD finger 3 2 2
MIRT567587 FCHSD2 FCH and double SH3 domains 2 2 2
MIRT569597 C3orf62 chromosome 3 open reading frame 62 2 2
MIRT569700 FMNL3 formin like 3 2 2
MIRT575957 Nanos1 nanos homolog 1 (Drosophila) 2 3
MIRT576516 Slc35e2 solute carrier family 35, member E2 2 2
MIRT608480 RRP36 ribosomal RNA processing 36 2 2
MIRT614335 NANOS1 nanos C2HC-type zinc finger 1 2 3
MIRT630816 ATAT1 alpha tubulin acetyltransferase 1 2 4
MIRT631708 C1QTNF6 C1q and TNF related 6 2 2
MIRT632369 SRRD SRR1 domain containing 2 2
MIRT633471 DSN1 DSN1 homolog, MIS12 kinetochore complex component 2 2
MIRT634478 PAFAH1B2 platelet activating factor acetylhydrolase 1b catalytic subunit 2 2 2
MIRT667336 MTHFD1L methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1 like 2 2
MIRT667654 LFNG LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase 2 2
MIRT671046 SS18 SS18, nBAF chromatin remodeling complex subunit 2 2
MIRT672823 VEZT vezatin, adherens junctions transmembrane protein 2 2
MIRT673049 SGPL1 sphingosine-1-phosphate lyase 1 2 2
MIRT673435 APAF1 apoptotic peptidase activating factor 1 2 2
MIRT676096 DPP9 dipeptidyl peptidase 9 2 2
MIRT678059 RPL7L1 ribosomal protein L7 like 1 2 2
MIRT679783 GOLGA2 golgin A2 2 2
MIRT684219 C9orf64 chromosome 9 open reading frame 64 2 2
MIRT697642 WRN Werner syndrome RecQ like helicase 2 2
MIRT706595 C1RL complement C1r subcomponent like 2 2
MIRT706603 CCS copper chaperone for superoxide dismutase 2 2
MIRT717647 HLX H2.0 like homeobox 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-3622a Doxorubicin 31703 NSC123127 approved resistant High Hepatocellular Carcinoma cell line (HepG2)
hsa-mir-3622a Paclitaxel 36314 NSC125973 approved resistant cell line (W1)
hsa-miR-3622a-5p Paclitaxel 36314 NSC125973 approved resistant High Non-Small Cell Lung Cancer cell line (A549)
hsa-miR-3622a-5p Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-3622a-5p Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-3622a-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3622a-5p Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-3622a-5p Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-3622a-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (MGC-803)
hsa-miR-3622a-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3622a-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)
hsa-miR-3622a-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)
hsa-miR-3622a-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (Panc1-GR3)
hsa-miR-3622a-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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