Table 1.
Detailed information on the microRNAs regulating PTBP1 in various types of cancer
| Gene name (ID)/Chromosome location |
MIR1‐1 (406904)/20q13.33 MIR1‐2 (406905)/18q11.2 |
MIR9‐1 (407046)/1q22 MIR9‐2 (407047)/5q14.3 MIR9‐3 (407051)/15q26.1 |
MIR124‐1 (406907)/8p23.1 MIR124‐2 (406908)/8q12.3 MIR124‐3 (406909)/20q13.33 |
MIR133B (442890)/6p12.2 |
MIR137 (406928)/1p21.3 |
MIR194‐1 (406969)/1q41 MIR194‐2 (406970)/11q13.1 |
MIR206 (406989)/6p12.2 |
MIR340 (442908)/5q35.3 |
|
|---|---|---|---|---|---|---|---|---|---|
| Target gene/Species name (ID) | PTBP1 (5725)/Homo sapiens (9606) | ||||||||
| Guide strand of mature miRNA | MIR1‐3p | MIR9‐5p | MIR124‐3p | MIR133b | MIR137‐3p | MIR194‐5p | MIR206 | MIR340‐5p | |
| Sequence of the target region 5'‐3' | CATTCC | ACCAAAG |
#1: GTGCCTT #2: TGCCTT #3: TGCCTTA #4: TGCCTTA |
#1: GACCAA #2: GGACCAA |
AGCAATA | CTGTTAC a | CATTCC | TTTATA b | |
| Genomic location of MTI | 19:8810871‐810876 |
19:811859‐ 811865 |
#1:19: 811155‐811161 #2:19: 811777‐811782 #3:19: 811156‐811162 #4:19: 811777‐811783 |
#1:19: 811484‐ 811489 #2:19: 811857‐ 811863 |
19:811468‐ 814774 |
19:811607‐ 811613 |
19:8810871‐ 810876 |
19:812021‐ 812026 |
|
| Genomic location of 3'UTR | 45‐51 | 1033‐1039 |
#1:329‐336 #2:951‐957 #3:330‐337 #4:951‐957 |
#1:658‐664 #2:1031‐1038 |
642‐648 | 781‐787 | 45‐51 | 1195‐1201 | |
|
Distribution characteristics (TSI) |
Muscle‐specific (0.975) |
Brain‐specific (0.96) |
Brain‐specific (0.975) |
Muscle‐specific (0.98) |
Brain‐specific (0.94) |
Abundant in liver and colon (0.905) |
Muscle‐specific (0.99) |
Abundant in brain, but expressed in various organs (0.855) |
|
| Type of cancer |
1: RMS 2: CRC |
Glioma |
1: Glioma 2: CRC 3: CML 4: PaC |
1: RMS 2: CRC 3: GC |
1: Glioma 2: CRC |
HCC | RMS | CRC | |
|
Reference Author year/(PMID) |
1: Sugito et al 2017/(28981396) 2: Taniguchi et al 2016/(26980745) |
Zhu et al 2019/(31253583) |
1: Ferrarese et al 2014/(24865424) 2: Sun et al 2012/(22895557) Taniguchi et al 2015/(25721733) Taniguchi et al 2015/(25818238) 3: Shinohara et al 2016/(26607903) 4: Li et al 2016/(27785603) |
1: Sugito et al 2017/(28981396) 2: Taniguchi et al 2016/(26980745) 3: Sugiyama et al 2016/(27696637) |
1: Taniguchi et al 2018/(29695138) 2: Sun et al 2012/(22895557) |
Kang et al 2019/(31301177) | Taniguchi et al 2018/(29695138) | Sun et al 2012/(22895557) | |
Gene names are described according to the Gene Nomenclature Committee of Human Genome Organization (https://www.genenames.org/).
The miRNA terminology used follows the proposed miRNA nomenclature guidelines. 76
The distribution characteristics and TSI were described with reference to data from the human miRNA tissue atlas (https://ccb‐web.cs.uni‐saarland.de/tissueatlas/). 18 The actual expression values are shown in Figure S1.
The number before each reference corresponds to the number of the designated type of cancer studied.
Abbreviations: CML, chronic myelocytic leukemia; CRC, colorectal cancer; GC, gastric cancer; HCC, hepatocellular carcinoma; MTI, microRNA‐target interaction, PaC, pancreatic cancer; PTBP1, polypyrimidine tract binding protein 1, RMS, rhabdomyosarcoma; TSI, tissue specificity index; 3'UTR, three prime untranslated region.
Poorly conserved site for microRNA families broadly conserved among vertebrates.
Poorly conserved site for microRNA families conserved among mammals. Each definition is referred to as in the TargetScan database (http://www.targetscan.org/vert_72/).