Tbl1x (transducin (beta)-like 1 X-linked) - Rat Genome Database

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Gene: Tbl1x (transducin (beta)-like 1 X-linked) Rattus norvegicus
Analyze
Symbol: Tbl1x (Ensembl: Tbl1xr1)
Name: transducin (beta)-like 1 X-linked (Ensembl:TBL1X/Y related 1)
RGD ID: 1563868
Description: Predicted to enable several functions, including histone binding activity; identical protein binding activity; and transcription corepressor activity. Predicted to be involved in several processes, including positive regulation of canonical Wnt signaling pathway; protein stabilization; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including fat cell differentiation; proteasome-mediated ubiquitin-dependent protein catabolic process; and response to estrogen. Predicted to be located in mitotic spindle and nucleus. Predicted to be part of histone deacetylase complex and transcription repressor complex. Human ortholog(s) of this gene implicated in Y-linked deafness 2 and congenital nongoitrous hypothyroidism 8. Orthologous to several human genes including TBL1X (transducin beta like 1 X-linked); PARTICIPATES IN Wnt signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 4-amino-2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: F-box-like/WD repeat-containing protein TBL1X; LOC302711; RGD1563868; similar to transducin (beta)-like 1 X-linked
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X45,452,983 - 45,609,532 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX45,454,482 - 45,609,525 (+)EnsemblGRCr8
mRatBN7.2X41,574,558 - 41,731,117 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX41,576,047 - 41,731,101 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX42,939,889 - 43,020,477 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X46,407,252 - 46,487,838 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X44,071,976 - 44,152,567 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X44,959,883 - 44,988,551 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX44,830,849 - 44,988,551 (+)Ensemblrn6Rnor6.0
Rnor_5.0X45,257,878 - 45,286,546 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X63,310,560 - 63,392,534 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX42,306,658 - 42,387,498 (+)NCBICelera
Cytogenetic MapXq21NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
acetylsalicylic acid  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
AM-251  (ISO)
amphetamine  (EXP)
aristolochic acid A  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-lapachone  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
chlordecone  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
coumestrol  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP)
diarsenic trioxide  (ISO)
dicrotophos  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
Enterolactone  (ISO)
etoposide  (ISO)
fenthion  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
gentamycin  (EXP)
ivermectin  (ISO)
methapyrilene  (EXP)
methidathion  (ISO)
methyl methanesulfonate  (ISO)
methylseleninic acid  (ISO)
oxaliplatin  (EXP)
paracetamol  (EXP,ISO)
perfluorononanoic acid  (ISO)
phenobarbital  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:10330347   PMID:10809664   PMID:12477932   PMID:12628926   PMID:14980219   PMID:15601853   PMID:15728386   PMID:16127449   PMID:18193033   PMID:18326024   PMID:18374649   PMID:21240272  
PMID:26070566  


Genomics

Comparative Map Data
Tbl1x
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X45,452,983 - 45,609,532 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX45,454,482 - 45,609,525 (+)EnsemblGRCr8
mRatBN7.2X41,574,558 - 41,731,117 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX41,576,047 - 41,731,101 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX42,939,889 - 43,020,477 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X46,407,252 - 46,487,838 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X44,071,976 - 44,152,567 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X44,959,883 - 44,988,551 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX44,830,849 - 44,988,551 (+)Ensemblrn6Rnor6.0
Rnor_5.0X45,257,878 - 45,286,546 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X63,310,560 - 63,392,534 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX42,306,658 - 42,387,498 (+)NCBICelera
Cytogenetic MapXq21NCBI
TBL1X
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X9,463,295 - 9,719,740 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX9,463,258 - 9,741,037 (+)Ensemblhg38GRCh38
GRCh37X9,431,335 - 9,687,780 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X9,393,048 - 9,647,778 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34X9,242,774 - 9,497,513NCBI
CeleraX13,603,270 - 13,859,701 (+)NCBICelera
Cytogenetic MapXp22.31-p22.2NCBI
HuRefX7,267,520 - 7,520,083 (+)NCBIHuRef
CHM1_1X9,461,907 - 9,718,276 (+)NCBICHM1_1
T2T-CHM13v2.0X9,045,885 - 9,302,376 (+)NCBIT2T-CHM13v2.0
Tbl1x
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X76,553,053 - 76,706,591 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX76,554,619 - 76,706,589 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38X77,509,549 - 77,662,722 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX77,511,013 - 77,662,983 (+)Ensemblmm10GRCm38
MGSCv37X74,756,566 - 74,905,604 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X73,763,946 - 73,912,984 (+)NCBIMGSCv36mm8
CeleraX68,836,540 - 68,985,804 (+)NCBICelera
Cytogenetic MapXA7.3- BNCBI
cM MapX38.31NCBI
Tbl1x
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554997,848,708 - 7,893,045 (+)Ensembl
ChiLan1.0NW_0049554997,706,973 - 7,896,168 (+)NCBIChiLan1.0ChiLan1.0
TBL1X
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X11,270,759 - 11,544,772 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X11,274,427 - 11,548,426 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X2,096,684 - 2,352,951 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X9,350,820 - 9,606,063 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX9,525,194 - 9,604,290 (+)EnsemblpanPan2panpan1.1
TBL1X
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X6,222,794 - 6,432,561 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX6,175,447 - 6,388,129 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0X6,163,215 - 6,377,059 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX6,164,815 - 6,374,052 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X6,156,927 - 6,369,928 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X6,192,762 - 6,404,790 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X6,181,611 - 6,393,913 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tbl1x
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049534,094,273 - 4,139,105 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936644240,820 - 282,424 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936644237,638 - 282,470 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TBL1X
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1X5,994,324 - 6,238,843 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X6,305,454 - 6,423,887 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TBL1X
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X7,921,674 - 8,173,139 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX8,091,125 - 8,173,679 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660569,597,286 - 9,849,698 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tbl1x
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248347,086,348 - 7,281,974 (+)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Tbl1x
879 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:952
Count of miRNA genes:347
Interacting mature miRNAs:480
Transcripts:ENSRNOT00000004901
Prediction methods:Microtar, Miranda, Pita
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X197044046970440Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX45182909117740458Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X811148653111486Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X4493088389930883Rat

Markers in Region
AW529429  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X41,730,144 - 41,730,327 (+)MAPPERmRatBN7.2
Rnor_6.0X44,987,579 - 44,987,761NCBIRnor6.0
Rnor_5.0X45,285,574 - 45,285,756UniSTSRnor5.0
RGSC_v3.4X63,391,562 - 63,391,744UniSTSRGSC3.4
CeleraX42,386,526 - 42,386,708UniSTS
RH 3.4 MapX581.5UniSTS
Cytogenetic MapXq22UniSTS
Tbl1x  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X41,728,262 - 41,728,867 (+)MAPPERmRatBN7.2
Rnor_6.0X44,985,697 - 44,986,301NCBIRnor6.0
Rnor_5.0X45,283,692 - 45,284,296UniSTSRnor5.0
RGSC_v3.4X63,389,680 - 63,390,284UniSTSRGSC3.4
CeleraX42,384,644 - 42,385,248UniSTS
Cytogenetic MapXq22UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000004901   ⟹   ENSRNOP00000004901
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX41,576,047 - 41,731,101 (+)Ensembl
Rnor_6.0 EnsemblX44,907,521 - 44,988,551 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000079680   ⟹   ENSRNOP00000070551
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX45,454,482 - 45,609,525 (+)Ensembl
mRatBN7.2 EnsemblX41,576,047 - 41,731,101 (+)Ensembl
Rnor_6.0 EnsemblX44,830,849 - 44,988,548 (+)Ensembl
RefSeq Acc Id: NM_001106964   ⟹   NP_001100434
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X45,528,800 - 45,609,532 (+)NCBI
mRatBN7.2X41,650,372 - 41,731,117 (+)NCBI
Rnor_6.0X44,959,883 - 44,988,551 (+)NCBI
Rnor_5.0X45,257,878 - 45,286,546 (+)NCBI
RGSC_v3.4X63,310,560 - 63,392,534 (+)RGD
CeleraX42,306,658 - 42,387,498 (+)RGD
Sequence:
RefSeq Acc Id: XM_039099665   ⟹   XP_038955593
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X45,454,219 - 45,609,529 (+)NCBI
mRatBN7.2X41,575,783 - 41,731,114 (+)NCBI
RefSeq Acc Id: XM_039099666   ⟹   XP_038955594
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X45,452,983 - 45,609,529 (+)NCBI
mRatBN7.2X41,574,558 - 41,731,111 (+)NCBI
RefSeq Acc Id: NP_001100434   ⟸   NM_001106964
- Sequence:
Ensembl Acc Id: ENSRNOP00000070551   ⟸   ENSRNOT00000079680
Ensembl Acc Id: ENSRNOP00000004901   ⟸   ENSRNOT00000004901
RefSeq Acc Id: XP_038955594   ⟸   XM_039099666
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038955593   ⟸   XM_039099665
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V6G5-F1-model_v2 AlphaFold G3V6G5 1-527 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563868 AgrOrtholog
BioCyc Gene G2FUF-2414 BioCyc
Ensembl Genes ENSRNOG00000003686 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000079680 ENTREZGENE
  ENSRNOT00000079680.3 UniProtKB/TrEMBL
Gene3D-CATH 1.20.960.30 UniProtKB/TrEMBL
  2.130.10.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7930589 IMAGE-MGC_LOAD
InterPro Ebi-like UniProtKB/TrEMBL
  G-protein_beta_WD-40_rep UniProtKB/TrEMBL
  LisH_dimerisation UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom UniProtKB/TrEMBL
  WD40_repeat UniProtKB/TrEMBL
  WD40_repeat_CS UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
KEGG Report rno:302711 UniProtKB/TrEMBL
MGC_CLONE MGC:189476 IMAGE-MGC_LOAD
NCBI Gene 302711 ENTREZGENE
PANTHER F-BOX-LIKE/WD REPEAT-CONTAINING PROTEIN TBL1Y UniProtKB/TrEMBL
  PTHR22846 UniProtKB/TrEMBL
Pfam LisH UniProtKB/TrEMBL
  WD40 UniProtKB/TrEMBL
PhenoGen Tbl1x PhenoGen
PRINTS GPROTEINBRPT UniProtKB/TrEMBL
PROSITE LISH UniProtKB/TrEMBL
  WD_REPEATS_1 UniProtKB/TrEMBL
  WD_REPEATS_2 UniProtKB/TrEMBL
  WD_REPEATS_REGION UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003686 RatGTEx
SMART LisH UniProtKB/TrEMBL
  WD40 UniProtKB/TrEMBL
Superfamily-SCOP WD40_like UniProtKB/TrEMBL
UniProt A0A0G2JY80 ENTREZGENE, UniProtKB/TrEMBL
  A6IPS7 ENTREZGENE, UniProtKB/TrEMBL
  B2RZA6_RAT UniProtKB/TrEMBL
  G3V6G5 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Tbl1x  transducin (beta)-like 1 X-linked   Tbl1x_predicted  transducin (beta)-like 1 X-linked (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Tbl1x_predicted  transducin (beta)-like 1 X-linked (predicted)  RGD1563868_predicted  similar to transducin (beta)-like 1 X-linked (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1563868_predicted  similar to transducin (beta)-like 1 X-linked (predicted)  LOC302711  similar to transducin (beta)-like 1 X-linked  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC302711  similar to transducin (beta)-like 1 X-linked      Symbol and Name status set to provisional 70820 PROVISIONAL