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This gene lies within the MHC class I region on chromosome 6p21.3. This gene is believed to be non-coding, but its function has not been determined. [provided by RefSeq, Jul 2009]
HCG9 (HLA Complex Group 9) is an RNA Gene, and is affiliated with the lncRNA class.
GeneHancer (GH) Identifier | GH Type | GH Score |
GH Sources | Gene Association Score | Total Score | TSS distance (kb) | Number of Genes Away | Size (kb) | Transcription Factor Binding Sites |
Gene Targets |
---|---|---|---|---|---|---|---|---|---|---|
GH06J029976 | Promoter/Enhancer | 2.2 | EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER | 600.7 | +1.4 | 1388 | 3 | RNF2 CREB1 GATAD2A PRDM10 ZNF629 TFE3 ZNF512 IKZF1 CTCF ZNF143 | MICD HCG9 POLR1H HLA-K HLA-H HLA-J ENSG00000230521 ENSG00000237669 HLA-A ZFP57 | |
GH06J030857 | Enhancer | 1 | Ensembl ENCODE dbSUPER | 6.3 | +882.4 | 882376 | 1.4 | SP1 ZIC2 ARNT ZBTB44 RUNX3 ESR1 TGIF2 BCLAF1 OSR2 BCL11A | VARS2 RNU6-1133P MUCL3 HCG21 HCG9 ENSG00000272501 HLA-J RF00017-5407 piR-36588-363 DDR1 | |
GH06J030942 | Enhancer | 0.7 | CraniofacialAtlas | 6.4 | +967.2 | 967212 | 0.6 | PRDM1 REST POLR2A ZNF600 ZNF341 ZBTB20 SP1 CTCF ZXDB CTBP1 | VARS2 HCG9 MUCL3 SFTA2 RF00017-5401 | |
GH06J030500 | Enhancer | 0.8 | Ensembl ENCODE dbSUPER | 5.3 | +525.4 | 525389 | 3.4 | PRDM1 ZBTB33 ZNF652 MCM2 ZNF548 | piR-45471-516 piR-55654-435 piR-43583-467 ABCF1 DHX16 MDC1 GNL1 PRR3 HLA-F-AS1 MIR877 |
RNAcentral Transcript ID | Subcategory | Length (nts) | # of Sources | Source Identifiers and Annotations |
---|---|---|---|---|
URS000076D015_9606 | lncRNA | 663 | 4 |
Ensembl: ENST00000376800 (view in UCSC) , ENST00000422999 (view in UCSC) , LncBook: HSALNT0103672, HSALNT0103673, HSALNT0103674, HSALNT0103675, HSALNT0103677, LNCipedia: HCG9:2, NONCODE: NONHSAT116910.2, |
URS00008C3CAF_9606 | lncRNA | 659 | 3 |
Ensembl: ENST00000445934 (view in UCSC) , LncBook: HSALNT0103679, NONCODE: NONHSAT116556.2, |
URS00008C2B05_9606 | lncRNA | 662 | 2 |
Ensembl: ENST00000416207 (view in UCSC) , NONCODE: NONHSAT117598.2, |
URS00008C3CC6_9606 | lncRNA | 662 | 2 |
Ensembl: ENST00000383616 (view in UCSC) , NONCODE: NONHSAT117919.2, |
URS00008C0E2B_9606 | lncRNA | 654 | 2 |
Ensembl: ENST00000413215 (view in UCSC) , NONCODE: NONHSAT117261.2, |
Variant ID | Type | Subtype | PubMed ID |
---|---|---|---|
dgv1088e199 | CNV | deletion | 23128226 |
dgv992e201 | CNV | deletion | 23290073 |
dgv993e201 | CNV | deletion | 23290073 |
esv2641340 | CNV | deletion | 19546169 |
esv2670487 | CNV | deletion | 23128226 |
esv2731775 | CNV | deletion | 23290073 |
esv2731777 | CNV | deletion | 23290073 |
esv2731778 | CNV | deletion | 23290073 |
esv2759412 | CNV | gain+loss | 17122850 |
esv32544 | CNV | gain+loss | 17666407 |
esv3303415 | CNV | mobile element insertion | 20981092 |
esv3310214 | CNV | mobile element insertion | 20981092 |
esv3332677 | CNV | duplication | 20981092 |
esv3342659 | CNV | insertion | 20981092 |
esv3350882 | CNV | duplication | 20981092 |
esv3360519 | CNV | insertion | 20981092 |
esv3369212 | CNV | duplication | 20981092 |
nsv1074389 | CNV | deletion | 25765185 |
nsv10810 | CNV | gain+loss | 18304495 |
nsv1122126 | CNV | deletion | 24896259 |
nsv1144137 | CNV | deletion | 24896259 |
nsv508398 | CNV | deletion | 20534489 |
nsv511863 | CNV | loss | 21212237 |
nsv601264 | CNV | loss | 21841781 |
No disorders were found for HCG9 Gene.