Bbof1 (basal body orientation factor 1) - Rat Genome Database

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Gene: Bbof1 (basal body orientation factor 1) Rattus norvegicus
Analyze
Symbol: Bbof1
Name: basal body orientation factor 1
RGD ID: 1560978
Description: Predicted to be involved in sperm axoneme assembly. Predicted to be located in axoneme and sperm flagellum. Orthologous to human BBOF1 (basal body orientation factor 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: basal body-orientation factor 1; Ccdc176; coiled-coil domain containing 176; hypothetical protein LOC500693; hypothetical protein LOC685784; LOC500693; LOC685784; RGD1560978; similar to hypothetical protein; uncharacterized protein LOC500693
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86109,786,363 - 109,812,153 (+)NCBIGRCr8
mRatBN7.26104,055,246 - 104,081,036 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6104,055,241 - 104,082,071 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx6104,216,998 - 104,242,810 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06104,516,082 - 104,541,894 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06103,885,666 - 103,911,478 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.06108,123,855 - 108,149,613 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6108,123,816 - 108,149,607 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06117,396,784 - 117,422,545 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46108,473,030 - 108,498,836 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera6101,883,280 - 101,909,048 (+)NCBICelera
Cytogenetic Map6q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
axoneme  (ISO)
sperm flagellum  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Bbof1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86109,786,363 - 109,812,153 (+)NCBIGRCr8
mRatBN7.26104,055,246 - 104,081,036 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6104,055,241 - 104,082,071 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx6104,216,998 - 104,242,810 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06104,516,082 - 104,541,894 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06103,885,666 - 103,911,478 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.06108,123,855 - 108,149,613 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6108,123,816 - 108,149,607 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06117,396,784 - 117,422,545 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46108,473,030 - 108,498,836 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera6101,883,280 - 101,909,048 (+)NCBICelera
Cytogenetic Map6q31NCBI
BBOF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381474,019,349 - 74,082,864 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1474,019,349 - 74,082,863 (+)EnsemblGRCh38hg38GRCh38
GRCh371474,486,052 - 74,532,795 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361473,586,210 - 73,602,548 (+)NCBINCBI36Build 36hg18NCBI36
Build 341473,586,209 - 73,602,546NCBI
Celera1454,523,011 - 54,569,747 (+)NCBICelera
Cytogenetic Map14q24.3NCBI
HuRef1454,652,712 - 54,699,536 (+)NCBIHuRef
CHM1_11474,425,612 - 74,472,265 (+)NCBICHM1_1
T2T-CHM13v2.01468,227,014 - 68,286,031 (+)NCBIT2T-CHM13v2.0
Bbof1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391284,455,243 - 84,488,279 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1284,455,845 - 84,489,661 (+)EnsemblGRCm39 Ensembl
GRCm381284,408,461 - 84,441,428 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1284,409,071 - 84,442,887 (+)EnsemblGRCm38mm10GRCm38
MGSCv371285,750,018 - 85,774,730 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361285,298,862 - 85,323,528 (+)NCBIMGSCv36mm8
Celera1285,864,581 - 85,889,293 (+)NCBICelera
Cytogenetic Map12D1NCBI
cM Map1239.2NCBI
Bbof1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555231,363,246 - 1,405,022 (-)NCBIChiLan1.0ChiLan1.0
BBOF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21575,109,193 - 75,173,872 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11474,325,700 - 74,390,380 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01454,578,549 - 54,637,331 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11473,434,030 - 73,489,974 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1473,434,030 - 73,478,079 (+)Ensemblpanpan1.1panPan2
BBOF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1847,245,995 - 47,286,650 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl847,246,126 - 47,285,518 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha846,930,305 - 46,970,953 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0847,473,218 - 47,514,392 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl847,472,909 - 47,514,397 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1847,142,691 - 47,183,591 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0847,160,729 - 47,201,320 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0847,551,019 - 47,592,172 (+)NCBIUU_Cfam_GSD_1.0
Bbof1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864028,743,127 - 28,787,110 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049364883,281,863 - 3,317,680 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BBOF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl797,316,711 - 97,368,049 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1797,316,630 - 97,367,526 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27103,070,780 - 103,122,015 (+)NCBISscrofa10.2Sscrofa10.2susScr3
BBOF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12451,234,618 - 51,279,537 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2451,234,663 - 51,280,595 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605339,458,359 - 39,506,240 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Bbof1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473427,517,617 - 27,568,703 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Bbof1
50 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:346
Count of miRNA genes:208
Interacting mature miRNAs:235
Transcripts:ENSRNOT00000063900
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)645790088104200226Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)657730540104085867Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)657730540104085867Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)661747639106747639Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
1641904Alcrsp4Alcohol response QTL 4response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)667262953112262953Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)671201409116201409Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)672202632115200186Rat
70196BpQTLcluster7Blood pressure QTL cluster 76.82arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)672202632117202632Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)672202632130729475Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)672202632130919985Rat
1581550Pur8Proteinuria QTL 8urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)672227641130729205Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)672227641130729205Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)673463459109394713Rat
2293837Kiddil1Kidney dilation QTL 13.7kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)681132889104393926Rat
2293842Kiddil3Kidney dilation QTL 34.3kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)681132889104393926Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)682523650110548006Rat
1576302Schws4Schwannoma susceptibility QTL 40.0078nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)683190345106747639Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)684130881129130881Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)685140138130140138Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)685140138130140138Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)685311061133478515Rat
1300076Glom8Glomerulus QTL 870.000000009kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)686894788131894788Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)688047916133047916Rat
1331722Thshl1Thyroid stimulating hormone level QTL 111.70.0001blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)689762877106752806Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)693701310128713626Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)694968928137848904Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)694968928139968928Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)696833997140994061Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6100364669140994061Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6100671796132340886Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 13 7
Low 3 43 57 41 19 41 8 10 74 35 28 4 8
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000063900   ⟹   ENSRNOP00000059292
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6104,055,278 - 104,081,030 (+)Ensembl
Rnor_6.0 Ensembl6108,123,855 - 108,149,607 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000089242   ⟹   ENSRNOP00000073122
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6104,055,241 - 104,081,030 (+)Ensembl
Rnor_6.0 Ensembl6108,123,816 - 108,149,344 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000098589   ⟹   ENSRNOP00000079957
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6104,055,278 - 104,082,071 (+)Ensembl
RefSeq Acc Id: NM_001395618   ⟹   NP_001382547
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86109,786,363 - 109,812,153 (+)NCBI
mRatBN7.26104,055,246 - 104,081,036 (+)NCBI
RefSeq Acc Id: XM_008764830   ⟹   XP_008763052
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86109,788,871 - 109,812,153 (+)NCBI
mRatBN7.26104,057,841 - 104,080,581 (+)NCBI
Rnor_6.06108,126,439 - 108,147,627 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063262320   ⟹   XP_063118390
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86109,788,871 - 109,812,153 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_008763052   ⟸   XM_008764830
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000073122   ⟸   ENSRNOT00000089242
RefSeq Acc Id: ENSRNOP00000059292   ⟸   ENSRNOT00000063900
RefSeq Acc Id: ENSRNOP00000079957   ⟸   ENSRNOT00000098589
RefSeq Acc Id: NP_001382547   ⟸   NM_001395618
- UniProtKB: A0A8I6G3Y3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063118390   ⟸   XM_063262320
- Peptide Label: isoform X2
Protein Domains
DUF4515

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K4P4-F1-model_v2 AlphaFold A0A0G2K4P4 1-528 view protein structure

Transcriptome

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

Promoters
RGD ID:13694728
Promoter ID:EPDNEW_R5250
Type:initiation region
Name:Bbof1_1
Description:basal body orientation factor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.06108,123,842 - 108,123,902EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560978 AgrOrtholog
BioCyc Gene G2FUF-36820 BioCyc
Ensembl Genes ENSRNOG00000011376 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000063900.2 UniProtKB/TrEMBL
  ENSRNOT00000089242.2 UniProtKB/TrEMBL
  ENSRNOT00000098589 ENTREZGENE
  ENSRNOT00000098589.1 UniProtKB/TrEMBL
InterPro DUF4515 UniProtKB/TrEMBL
KEGG Report rno:500693 UniProtKB/TrEMBL
NCBI Gene 500693 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING 166 UniProtKB/TrEMBL
  PTHR14845:SF5 UniProtKB/TrEMBL
Pfam DUF4515 UniProtKB/TrEMBL
PhenoGen Bbof1 PhenoGen
RatGTEx ENSRNOG00000011376 RatGTEx
UniProt A0A0G2K4P4_RAT UniProtKB/TrEMBL
  A0A8I6G3Y3 ENTREZGENE, UniProtKB/TrEMBL
  D4A971_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-10-26 Bbof1  basal body orientation factor 1  Ccdc176  coiled-coil domain containing 176  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-29 Ccdc176  coiled-coil domain containing 176  LOC685784  hypothetical protein LOC685784  Data merged from RGD:1590184 737654 PROVISIONAL
2012-10-11 Ccdc176  coiled-coil domain containing 176  RGD1560978  similar to hypothetical protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1560978  similar to hypothetical protein   RGD1560978_predicted  similar to hypothetical protein (predicted)  'predicted' is removed 2292626 APPROVED
2008-01-09 LOC685784  hypothetical protein LOC685784  LOC679454  hypothetical protein LOC679454  Data merged from RGD:1588311 1643240 APPROVED
2006-11-20 LOC685784  hypothetical protein LOC685784      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC679454  hypothetical protein LOC679454      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1560978_predicted  similar to hypothetical protein (predicted)  LOC500693  similar to hypothetical protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500693  similar to hypothetical protein      Symbol and Name status set to provisional 70820 PROVISIONAL