nuclear speck Gene Set

Dataset COMPARTMENTS Text-mining Protein Localization Evidence Scores
Category structural or functional annotations
Type cellular component
Description A discrete extra-nucleolar subnuclear domain, 20-50 in number, in which splicing factors are seen to be localized by immunofluorescence microscopy. (Gene Ontology, GO_0016607)
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Genes

292 proteins co-occuring with the nuclear speck cellular component in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores dataset.

Symbol Name Standardized Value
SRSF2 serine/arginine-rich splicing factor 2 2.36579
CLK1 CDC-like kinase 1 1.48532
CCNL1 cyclin L1 1.34174
SRSF1 serine/arginine-rich splicing factor 1 1.2777
RNPS1 RNA binding protein S1, serine-rich domain 1.24812
CD79A CD79a molecule, immunoglobulin-associated alpha 1.19828
PNN pinin, desmosome associated protein 1.19057
CCNL2 cyclin L2 1.18594
TCERG1 transcription elongation regulator 1 1.07714
NXF1 nuclear RNA export factor 1 1.00744
ALKBH5 AlkB family member 5, RNA demethylase 0.958789
MAGOHB mago-nashi homolog B (Drosophila) 0.931716
CTLA4 cytotoxic T-lymphocyte-associated protein 4 0.927952
MAGOH mago-nashi homolog, proliferation-associated (Drosophila) 0.925135
COIL coilin 0.922322
CLK3 CDC-like kinase 3 0.888859
CDK11A cyclin-dependent kinase 11A 0.881938
ACIN1 apoptotic chromatin condensation inducer 1 0.87733
WBP4 WW domain binding protein 4 0.876869
PNISR PNN-interacting serine/arginine-rich protein 0.874107
CBS cystathionine-beta-synthase 0.862609
U2AF2 U2 small nuclear RNA auxiliary factor 2 0.86077
ZBTB5 zinc finger and BTB domain containing 5 0.842401
ZBTB8A zinc finger and BTB domain containing 8A 0.842401
CDKL5 cyclin-dependent kinase-like 5 0.83322
NSRP1 nuclear speckle splicing regulatory protein 1 0.820829
DHX15 DEAH (Asp-Glu-Ala-His) box helicase 15 0.820829
TRA2B transformer 2 beta homolog (Drosophila) 0.819911
SCAF8 SR-related CTD-associated factor 8 0.788733
HNRNPC heterogeneous nuclear ribonucleoprotein C (C1/C2) 0.788275
RBM11 RNA binding motif protein 11 0.782326
PQBP1 polyglutamine binding protein 1 0.78004
RBM14 RNA binding motif protein 14 0.775014
RBM4 RNA binding motif protein 4 0.764527
WTAP Wilms tumor 1 associated protein 0.762707
PRPF40A PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) 0.740965
FTO fat mass and obesity associated 0.737813
DYRK1A dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1A 0.715014
HNRNPDL heterogeneous nuclear ribonucleoprotein D-like 0.709693
RSRC1 arginine/serine-rich coiled-coil 1 0.700863
EAF2 ELL associated factor 2 0.699103
EEF1G eukaryotic translation elongation factor 1 gamma 0.693832
METTL14 methyltransferase like 14 0.690764
GPKOW G patch domain and KOW motifs 0.687701
SRPK2 SRSF protein kinase 2 0.685517
PSG9 pregnancy specific beta-1-glycoprotein 9 0.684644
PABPN1 poly(A) binding protein, nuclear 1 0.681591
BCLAF1 BCL2-associated transcription factor 1 0.679849
LUC7L2 LUC7-like 2 (S. cerevisiae) 0.675499
INO80B INO80 complex subunit B 0.668559
EIF4A3 eukaryotic translation initiation factor 4A3 0.668126
AFF2 AF4/FMR2 family, member 2 0.664664
BTG1 B-cell translocation gene 1, anti-proliferative 0.659482
CCNT1 cyclin T1 0.658188
SCNM1 sodium channel modifier 1 0.656895
SPOP speckle-type POZ protein 0.65345
SRPK1 SRSF protein kinase 1 0.651299
RBM23 RNA binding motif protein 23 0.646145
LRRC8C leucine rich repeat containing 8 family, member C 0.642715
HIPK1 homeodomain interacting protein kinase 1 0.642286
RBM27 RNA binding motif protein 27 0.640573
FOXJ3 forkhead box J3 0.634159
PCBP3 poly(rC) binding protein 3 0.625632
CXXC1 CXXC finger protein 1 0.608663
INPPL1 inositol polyphosphate phosphatase-like 1 0.602752
C8ORF4 chromosome 8 open reading frame 4 0.599381
NOC3L nucleolar complex associated 3 homolog (S. cerevisiae) 0.59896
NKAP NFKB activating protein 0.593072
MANF mesencephalic astrocyte-derived neurotrophic factor 0.584686
XAGE1B X antigen family, member 1B 0.574662
XAGE1E X antigen family, member 1E 0.574662
BTN1A1 butyrophilin, subfamily 1, member A1 0.573411
ZC3H14 zinc finger CCCH-type containing 14 0.568416
ZNF74 zinc finger protein 74 0.556387
HIPK3 homeodomain interacting protein kinase 3 0.554318
PCBP4 poly(rC) binding protein 4 0.552251
FBLL1 fibrillarin-like 1 0.543587
PSKH1 protein serine kinase H1 0.53906
TAPBPL TAP binding protein-like 0.53413
PLCB1 phospholipase C, beta 1 (phosphoinositide-specific) 0.527979
PSPC1 paraspeckle component 1 0.525113
AKIP1 A kinase (PRKA) interacting protein 1 0.519798
MBNL3 muscleblind-like splicing regulator 3 0.518165
BTNL9 butyrophilin-like 9 0.518165
LMNB1 lamin B1 0.515716
SNW1 SNW domain containing 1 0.51164
CT47A9 cancer/testis antigen family 47, member A9 0.510418
TFIP11 tuftelin interacting protein 11 0.499447
PKNOX1 PBX/knotted 1 homeobox 1 0.498231
CD86 CD86 molecule 0.496205
CTBP1 C-terminal binding protein 1 0.496205
SF3B4 splicing factor 3b, subunit 4, 49kDa 0.4958
DDX1 DEAD (Asp-Glu-Ala-Asp) box helicase 1 0.488519
SLC37A2 solute carrier family 37 (glucose-6-phosphate transporter), member 2 0.486096
PIP4K2A phosphatidylinositol-5-phosphate 4-kinase, type II, alpha 0.485693
PHF5A PHD finger protein 5A 0.484483
SF1 splicing factor 1 0.479245
RBMY1F RNA binding motif protein, Y-linked, family 1, member F 0.477233
THRAP3 thyroid hormone receptor associated protein 3 0.47442
CHERP calcium homeostasis endoplasmic reticulum protein 0.474018
CCNA1 cyclin A1 0.473617
LMNA lamin A/C 0.470406
ZC3H13 zinc finger CCCH-type containing 13 0.461998
SETD8 SET domain containing (lysine methyltransferase) 8 0.458803
ARL6IP4 ADP-ribosylation factor-like 6 interacting protein 4 0.448451
METTL3 methyltransferase like 3 0.447656
BTNL2 butyrophilin-like 2 0.444482
NHP2L1 NHP2 non-histone chromosome protein 2-like 1 (S. cerevisiae) 0.440916
SDCBP2 syndecan binding protein (syntenin) 2 0.438146
RGL2 ral guanine nucleotide dissociation stimulator-like 2 0.432618
NFX1 nuclear transcription factor, X-box binding 1 0.431435
HIPK2 homeodomain interacting protein kinase 2 0.427891
RBMY1J RNA binding motif protein, Y-linked, family 1, member J 0.424353
AFF3 AF4/FMR2 family, member 3 0.424353
DDX20 DEAD (Asp-Glu-Ala-Asp) box polypeptide 20 0.42396
AQR aquarius intron-binding spliceosomal factor 0.418468
ZDHHC23 zinc finger, DHHC-type containing 23 0.417685
SPAG16 sperm associated antigen 16 0.416511
HEXIM1 hexamethylene bis-acetamide inducible 1 0.415728
WBP11 WW domain binding protein 11 0.414946
CDK9 cyclin-dependent kinase 9 0.412992
CRYAB crystallin, alpha B 0.412992
CD80 CD80 molecule 0.408309
TAF6 TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 80kDa 0.407529
PIAS4 protein inhibitor of activated STAT, 4 0.403637
CD276 CD276 molecule 0.397035
SRSF3 serine/arginine-rich splicing factor 3 0.395873
WT1 Wilms tumor 1 0.395873
SON SON DNA binding protein 0.393549
DHX36 DEAH (Asp-Glu-Ala-His) box polypeptide 36 0.391615
UBE2I ubiquitin-conjugating enzyme E2I 0.388523
PSMD13 proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 0.385051
CACTIN cactin, spliceosome C complex subunit 0.38428
CCRN4L CCR4 carbon catabolite repression 4-like (S. cerevisiae) 0.382354
WNT2 wingless-type MMTV integration site family member 2 0.380045
ESRP1 epithelial splicing regulatory protein 1 0.380045
SETD1A SET domain containing 1A 0.371982
AKAP17A A kinase (PRKA) anchor protein 17A 0.371599
RBBP6 retinoblastoma binding protein 6 0.367771
SAE1 SUMO1 activating enzyme subunit 1 0.367771
PIAS1 protein inhibitor of activated STAT, 1 0.365859
IGHV5-51 immunoglobulin heavy variable 5-51 0.365095
PRMT2 protein arginine methyltransferase 2 0.362422
HBZ hemoglobin, zeta 0.354042
FRG1 FSHD region gene 1 0.353662
OLFM4 olfactomedin 4 0.347967
SARNP SAP domain containing ribonucleoprotein 0.347967
ARHGEF11 Rho guanine nucleotide exchange factor (GEF) 11 0.347208
CEACAM3 carcinoembryonic antigen-related cell adhesion molecule 3 0.345692
HOXD9 homeobox D9 0.343421
CASP8AP2 caspase 8 associated protein 2 0.341151
RNASE1 ribonuclease, RNase A family, 1 (pancreatic) 0.340017
BRD4 bromodomain containing 4 0.333979
DDX39A DEAD (Asp-Glu-Ala-Asp) box polypeptide 39A 0.332095
CPSF3 cleavage and polyadenylation specific factor 3, 73kDa 0.329837
MBNL2 muscleblind-like splicing regulator 2 0.328332
SRRM2 serine/arginine repetitive matrix 2 0.326078
CPSF1 cleavage and polyadenylation specific factor 1, 160kDa 0.323075
PPP1R10 protein phosphatase 1, regulatory subunit 10 0.321575
CTBP2 C-terminal binding protein 2 0.319702
SETD1B SET domain containing 1B 0.319328
PBX2 pre-B-cell leukemia homeobox 2 0.318953
SF3B2 splicing factor 3b, subunit 2, 145kDa 0.313344
ERH enhancer of rudimentary homolog (Drosophila) 0.308494
SAP18 Sin3A-associated protein, 18kDa 0.308122
CTSF cathepsin F 0.306632
POLDIP3 polymerase (DNA-directed), delta interacting protein 3 0.305888
PIK3C2B phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta 0.303655
TOPORS topoisomerase I binding, arginine/serine-rich, E3 ubiquitin protein ligase 0.302912
DYRK2 dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2 0.297713
U2AF1 U2 small nuclear RNA auxiliary factor 1 0.297342
CTNNBL1 catenin, beta like 1 0.295489
DGKQ diacylglycerol kinase, theta 110kDa 0.293637
HOXA9 homeobox A9 0.293637
RBM5 RNA binding motif protein 5 0.293267
CD2BP2 CD2 (cytoplasmic tail) binding protein 2 0.292527
HNRNPA1 heterogeneous nuclear ribonucleoprotein A1 0.291417
CYCS cytochrome c, somatic 0.290678
BNC1 basonuclin 1 0.290678
BIRC3 baculoviral IAP repeat containing 3 0.290308
PRMT6 protein arginine methyltransferase 6 0.288829
TENM1 teneurin transmembrane protein 1 0.287352
RBMY1A1 RNA binding motif protein, Y-linked, family 1, member A1 0.287352
CEACAM8 carcinoembryonic antigen-related cell adhesion molecule 8 0.286245
AKAP8L A kinase (PRKA) anchor protein 8-like 0.283663
MBD1 methyl-CpG binding domain protein 1 0.283663
CNOT7 CCR4-NOT transcription complex, subunit 7 0.281453
THOC5 THO complex 5 0.280349
PIGC phosphatidylinositol glycan anchor biosynthesis, class C 0.278877
XRN2 5'-3' exoribonuclease 2 0.278877
CIZ1 CDKN1A interacting zinc finger protein 1 0.275569
CCNA2 cyclin A2 0.274835
PRPF6 pre-mRNA processing factor 6 0.2719
SART3 squamous cell carcinoma antigen recognized by T cells 3 0.268603
WDR82 WD repeat domain 82 0.267505
HSPB7 heat shock 27kDa protein family, member 7 (cardiovascular) 0.267139
RP9 retinitis pigmentosa 9 (autosomal dominant) 0.266774
POMC proopiomelanocortin 0.266408
RAE1 ribonucleic acid export 1 0.262755
KHDRBS1 KH domain containing, RNA binding, signal transduction associated 1 0.26166
RBFOX1 RNA binding protein, fox-1 homolog (C. elegans) 1 0.261296
RANBP9 RAN binding protein 9 0.261296
ATXN1 ataxin 1 0.255288
IKBKAP inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase complex-associated protein 0.25438
HDAC5 histone deacetylase 5 0.250026
ZNF222 zinc finger protein 222 0.247854
SART1 squamous cell carcinoma antigen recognized by T cells 0.247492
SP100 SP100 nuclear antigen 0.24713
NCL nucleolin 0.246046
RAB23 RAB23, member RAS oncogene family 0.240636
RBM15 RNA binding motif protein 15 0.239557
H2AFX H2A histone family, member X 0.23776
CAPRIN1 cell cycle associated protein 1 0.236683
AFF1 AF4/FMR2 family, member 1 0.232029
EDC3 enhancer of mRNA decapping 3 0.229176
SF3A1 splicing factor 3a, subunit 1, 120kDa 0.229176
PARN poly(A)-specific ribonuclease 0.228819
DDX47 DEAD (Asp-Glu-Ala-Asp) box polypeptide 47 0.227752
CPSF6 cleavage and polyadenylation specific factor 6, 68kDa 0.227752
AFF4 AF4/FMR2 family, member 4 0.227397
CREBBP CREB binding protein 0.227041
CDKN1A cyclin-dependent kinase inhibitor 1A (p21, Cip1) 0.223143
RBBP5 retinoblastoma binding protein 5 0.22279
DGKZ diacylglycerol kinase, zeta 0.22279
DYRK1B dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1B 0.222083
ALB albumin 0.22173
FGFR1 fibroblast growth factor receptor 1 0.221025
HLA-DPB1 major histocompatibility complex, class II, DP beta 1 0.221025
GEMIN5 gem (nuclear organelle) associated protein 5 0.220673
GEMIN4 gem (nuclear organelle) associated protein 4 0.21716
MXI1 MAX interactor 1, dimerization protein 0.216111
IGLV7-43 immunoglobulin lambda variable 7-43 0.216111
MAEA macrophage erythroblast attacher 0.215761
VPREB1 pre-B lymphocyte 1 0.215412
KCNG1 potassium channel, voltage gated modifier subfamily G, member 1 0.214017
ITGAL integrin, alpha L (antigen CD11A (p180), lymphocyte function-associated antigen 1; alpha polypeptide) 0.213669
NBPF8 neuroblastoma breakpoint family, member 8 0.213322
ATRX alpha thalassemia/mental retardation syndrome X-linked 0.212974
SF3A2 splicing factor 3a, subunit 2, 66kDa 0.21228
LGALS4 lectin, galactoside-binding, soluble, 4 0.210031
PPP2R5C protein phosphatase 2, regulatory subunit B', gamma 0.209513
APBB1 amyloid beta (A4) precursor protein-binding, family B, member 1 (Fe65) 0.208825
CDK19 cyclin-dependent kinase 19 0.208137
BCOR BCL6 corepressor 0.207794
MEF2C myocyte enhancer factor 2C 0.206766
SRSF5 serine/arginine-rich splicing factor 5 0.203361
EFTUD2 elongation factor Tu GTP binding domain containing 2 0.201672
XPO1 exportin 1 0.196999
GADD45A growth arrest and DNA-damage-inducible, alpha 0.194371
KAT5 K(lysine) acetyltransferase 5 0.18859
PIM1 Pim-1 proto-oncogene, serine/threonine kinase 0.18859
PPIG peptidylprolyl isomerase G (cyclophilin G) 0.18859
YWHAG tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma 0.186397
HDAC4 histone deacetylase 4 0.18093
SSX1 synovial sarcoma, X breakpoint 1 0.180339
BBOX1 butyrobetaine (gamma), 2-oxoglutarate dioxygenase (gamma-butyrobetaine hydroxylase) 1 0.179167
NCOR2 nuclear receptor corepressor 2 0.172735
PRPF3 pre-mRNA processing factor 3 0.171149
CNOT8 CCR4-NOT transcription complex, subunit 8 0.170629
SMARCA2 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 0.170371
XRN1 5'-3' exoribonuclease 1 0.166884
KAT7 K(lysine) acetyltransferase 7 0.166643
AKAP8 A kinase (PRKA) anchor protein 8 0.165932
ZFX zinc finger protein, X-linked 0.165697
FMR1 fragile X mental retardation 1 0.165697
HIST1H4A histone cluster 1, H4a 0.165463
HIST1H4C histone cluster 1, H4c 0.165463
HIST1H4B histone cluster 1, H4b 0.165463
HIST1H4H histone cluster 1, H4h 0.165463
HIST1H4I histone cluster 1, H4i 0.165463
HIST1H4E histone cluster 1, H4e 0.165463
HIST1H4J histone cluster 1, H4j 0.165463
HIST2H4A histone cluster 2, H4a 0.165463
HIST2H4B histone cluster 2, H4b 0.165463
HIST1H4K histone cluster 1, H4k 0.165463
HIST1H4F histone cluster 1, H4f 0.165463
HIST1H4D histone cluster 1, H4d 0.165463
HIST4H4 histone cluster 4, H4 0.165231
HIST1H4L histone cluster 1, H4l 0.165231
PCBP1 poly(rC) binding protein 1 0.164315
NCOR1 nuclear receptor corepressor 1 0.164315
PRPF8 pre-mRNA processing factor 8 0.162117
PCBP2 poly(rC) binding protein 2 0.161693
RPS7 ribosomal protein S7 0.161068
SORBS1 sorbin and SH3 domain containing 1 0.160254
TJP2 tight junction protein 2 0.158692
NPM1 nucleophosmin (nucleolar phosphoprotein B23, numatrin) 0.157943
HSPA4 heat shock 70kDa protein 4 0.157397
RNMT RNA (guanine-7-) methyltransferase 0.157039
CD58 CD58 molecule 0.156513
HTT huntingtin 0.141971
MAPK8 mitogen-activated protein kinase 8 0.13779