Tent4a (terminal nucleotidyltransferase 4A) - Rat Genome Database

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Gene: Tent4a (terminal nucleotidyltransferase 4A) Rattus norvegicus
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Symbol: Tent4a
Name: terminal nucleotidyltransferase 4A
RGD ID: 1307356
Description: Predicted to enable guanylyltransferase activity and poly(A) RNA polymerase activity. Predicted to be involved in RNA metabolic process; regulation of mRNA stability; and response to xenobiotic stimulus. Predicted to be located in nucleus. Predicted to be part of TRAMP complex. Predicted to be active in nucleolus. Orthologous to human TENT4A (terminal nucleotidyltransferase 4A); PARTICIPATES IN nucleotide excision repair pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3H-1,2-dithiole-3-thione; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: DNA polymerase sigma; LOC306672; non-canonical poly(A) RNA polymerase PAPD7; PAP associated domain containing 7; Papd7; Pols; poly(A) RNA polymerase D7, non-canonical; polymerase (DNA directed) sigma
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8135,594,380 - 35,627,836 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl135,594,380 - 35,627,836 (+)EnsemblGRCr8
mRatBN7.2133,765,949 - 33,799,405 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl133,765,672 - 33,799,433 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx133,595,938 - 33,629,277 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0139,594,539 - 39,627,878 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0133,794,205 - 33,827,542 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0136,400,056 - 36,433,238 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl136,400,443 - 36,433,238 (+)Ensemblrn6Rnor6.0
Rnor_5.0137,797,077 - 37,830,260 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4173,926,190 - 3,958,985 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera132,370,578 - 32,403,374 (+)NCBICelera
RGSC_v3.1173,898,985 - 3,958,940 (+)NCBI
Cytogenetic Map1p11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleolus  (IBA)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO)
TRAMP complex  (IBA)

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. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10066793   PMID:30026317  


Genomics

Comparative Map Data
Tent4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8135,594,380 - 35,627,836 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl135,594,380 - 35,627,836 (+)EnsemblGRCr8
mRatBN7.2133,765,949 - 33,799,405 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl133,765,672 - 33,799,433 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx133,595,938 - 33,629,277 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0139,594,539 - 39,627,878 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0133,794,205 - 33,827,542 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0136,400,056 - 36,433,238 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl136,400,443 - 36,433,238 (+)Ensemblrn6Rnor6.0
Rnor_5.0137,797,077 - 37,830,260 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4173,926,190 - 3,958,985 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera132,370,578 - 32,403,374 (+)NCBICelera
RGSC_v3.1173,898,985 - 3,958,940 (+)NCBI
Cytogenetic Map1p11NCBI
TENT4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3856,713,432 - 6,757,044 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl56,713,291 - 6,757,045 (+)Ensemblhg38GRCh38
GRCh3756,713,545 - 6,757,157 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3656,767,718 - 6,810,161 (+)NCBIBuild 36Build 36hg18NCBI36
Build 3456,790,619 - 6,810,156NCBI
Celera56,740,937 - 6,785,032 (+)NCBICelera
Cytogenetic Map5p15.31NCBI
HuRef56,688,625 - 6,731,065 (+)NCBIHuRef
CHM1_156,714,585 - 6,757,027 (+)NCBICHM1_1
T2T-CHM13v2.056,644,097 - 6,687,689 (+)NCBIT2T-CHM13v2.0
Tent4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391369,646,071 - 69,682,710 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1369,646,078 - 69,682,736 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381369,497,952 - 69,534,236 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1369,497,959 - 69,534,617 (-)Ensemblmm10GRCm38
MGSCv371369,636,837 - 69,672,742 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361369,965,331 - 70,001,211 (-)NCBIMGSCv36mm8
Celera1371,843,268 - 71,879,187 (-)NCBICelera
Cytogenetic Map13B3NCBI
cM Map1335.55NCBI
Tent4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555044,443,051 - 4,476,520 (+)Ensembl
ChiLan1.0NW_0049555044,443,051 - 4,476,373 (+)NCBIChiLan1.0ChiLan1.0
TENT4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v246,958,694 - 7,004,254 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan155,112,289 - 5,157,862 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v057,032,809 - 7,077,080 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.156,709,590 - 6,752,159 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl56,724,029 - 6,752,159 (+)EnsemblpanPan2panpan1.1
TENT4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1347,021,743 - 7,063,049 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl347,020,187 - 7,063,129 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3411,528,929 - 11,572,562 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0346,928,417 - 6,972,045 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl346,928,400 - 6,972,045 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1346,975,637 - 7,019,254 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0346,956,407 - 7,000,038 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0347,171,096 - 7,214,777 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tent4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213240,075,921 - 240,115,682 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936634667,138 - 706,907 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936634667,170 - 706,901 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TENT4A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1675,217,219 - 75,258,556 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11675,217,212 - 75,259,805 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21681,582,545 - 81,598,984 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TENT4A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.146,400,248 - 6,442,582 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl46,399,886 - 6,443,002 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606422,276,214 - 22,319,135 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tent4a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247514,386,857 - 4,416,719 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247514,387,075 - 4,418,516 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Tent4a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12200,912,976 - 200,946,439 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tent4a
44 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:839
Count of miRNA genes:304
Interacting mature miRNAs:409
Transcripts:ENSRNOT00000023712
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1774611852746118Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1774612152746121Rat
1357397Bw41Body weight QTL 414.190.0001body mass (VT:0001259)body weight (CMO:0000012)12940927974409279Rat
70179Xhs2X-ray hypersensitivity QTL 23.2intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)1143965634Rat
1558642Prcr2Prostate cancer resistance QTL 24.3prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)11037949255379492Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1694102251941022Rat
1357401Bw43Body weight QTL 433.75body mass (VT:0001259)body weight (CMO:0000012)1690935351909353Rat
631494Bp95Blood pressure QTL 95400.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)11731537851816258Rat
5684998Bss101Bone structure and strength QTL 1013.6tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)1690935351909353Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
5684999Bss102Bone structure and strength QTL 1025.57e-07tibia strength trait (VT:1000284)tibia stiffness (CMO:0001735)1690935351909353Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11282049457820494Rat
634353Rends2Renal damage susceptibility QTL 20.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)12065642065656420Rat
1578756Iddm22Insulin dependent diabetes mellitus QTL 222.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)12050832665508326Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)11168446456684464Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)13070837587558729Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13456572679565726Rat

Markers in Region
D1Rat238  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2133,737,869 - 33,738,115 (+)MAPPERmRatBN7.2
Rnor_6.0136,371,658 - 36,371,903NCBIRnor6.0
Rnor_5.0137,768,680 - 37,768,925UniSTSRnor5.0
RGSC_v3.4173,897,422 - 3,897,668RGDRGSC3.4
RGSC_v3.4173,897,423 - 3,897,668UniSTSRGSC3.4
Celera132,342,596 - 32,342,841UniSTS
RGSC_v3.1173,897,422 - 3,897,668RGD
SHRSP x BN Map118.27UniSTS
SHRSP x BN Map118.27RGD
FHH x ACI Map125.71RGD
Cytogenetic Map17p14UniSTS
POLS  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2133,787,634 - 33,788,721 (+)MAPPERmRatBN7.2
Rnor_6.0136,421,440 - 36,422,526NCBIRnor6.0
Rnor_5.0137,818,462 - 37,819,548UniSTSRnor5.0
RGSC_v3.4173,947,187 - 3,948,273UniSTSRGSC3.4
Celera132,391,576 - 32,392,662UniSTS
Cytogenetic Map17p14UniSTS


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 67 163 91 90 59 92 59 6 356 192 11 142 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000023712   ⟹   ENSRNOP00000023712
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl135,594,380 - 35,627,836 (+)Ensembl
mRatBN7.2 Ensembl133,765,672 - 33,799,433 (+)Ensembl
Rnor_6.0 Ensembl136,400,443 - 36,433,238 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000128302   ⟹   ENSRNOP00000103767
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl135,594,380 - 35,627,836 (+)Ensembl
RefSeq Acc Id: NM_001107333   ⟹   NP_001100803
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8135,594,380 - 35,627,836 (+)NCBI
mRatBN7.2133,765,949 - 33,799,405 (+)NCBI
Rnor_6.0136,400,443 - 36,433,238 (+)NCBI
Rnor_5.0137,797,077 - 37,830,260 (+)NCBI
RGSC_v3.4173,926,190 - 3,958,985 (+)RGD
Celera132,370,578 - 32,403,374 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001415844   ⟹   NP_001402773
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8135,594,380 - 35,627,836 (+)NCBI
mRatBN7.2133,765,949 - 33,799,405 (+)NCBI
RefSeq Acc Id: XM_039110091   ⟹   XP_038966019
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8135,602,568 - 35,627,836 (+)NCBI
mRatBN7.2133,774,135 - 33,797,449 (+)NCBI
RefSeq Acc Id: XM_063288105   ⟹   XP_063144175
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8135,594,552 - 35,627,836 (+)NCBI
RefSeq Acc Id: NP_001100803   ⟸   NM_001107333
- Peptide Label: isoform 2
- UniProtKB: D3ZSY1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000023712   ⟸   ENSRNOT00000023712
RefSeq Acc Id: XP_038966019   ⟸   XM_039110091
- Peptide Label: isoform X2
- UniProtKB: A6JV21 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001402773   ⟸   NM_001415844
- Peptide Label: isoform 1
RefSeq Acc Id: XP_063144175   ⟸   XM_063288105
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000103767   ⟸   ENSRNOT00000128302
Protein Domains
PAP-associated   Poly(A) RNA polymerase mitochondrial-like central

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZSY1-F1-model_v2 AlphaFold D3ZSY1 1-541 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:1307356 AgrOrtholog
BioCyc Gene G2FUF-61865 BioCyc
Ensembl Genes ENSRNOG00000017613 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000023712 ENTREZGENE
  ENSRNOT00000023712.7 UniProtKB/TrEMBL
  ENSRNOT00000128302 ENTREZGENE
  ENSRNOT00000128302.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1410.10 UniProtKB/TrEMBL
  3.30.460.10 UniProtKB/TrEMBL
InterPro MTPAP-like_central UniProtKB/TrEMBL
  NT_sf UniProtKB/TrEMBL
  PAP_assoc UniProtKB/TrEMBL
  Trf4-like UniProtKB/TrEMBL
KEGG Report rno:306672 UniProtKB/TrEMBL
NCBI Gene 306672 ENTREZGENE
PANTHER PTHR23092 UniProtKB/TrEMBL
  PTHR23092:SF24 UniProtKB/TrEMBL
Pfam MTPAP-like_central UniProtKB/TrEMBL
  PAP_assoc UniProtKB/TrEMBL
PhenoGen Tent4a PhenoGen
RatGTEx ENSRNOG00000017613 RatGTEx
Superfamily-SCOP PAP/OAS1 substrate-binding domain UniProtKB/TrEMBL
  SSF81301 UniProtKB/TrEMBL
UniProt A0ABK0LPT1_RAT UniProtKB/TrEMBL
  A6JV21 ENTREZGENE, UniProtKB/TrEMBL
  D3ZSY1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-04-27 Tent4a  terminal nucleotidyltransferase 4A  Papd7  poly(A) RNA polymerase D7, non-canonical  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-07-27 Papd7  poly(A) RNA polymerase D7, non-canonical  Papd7  PAP associated domain containing 7  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-02 Papd7  PAP associated domain containing 7  Pols  polymerase (DNA directed) sigma  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Pols  polymerase (DNA directed) sigma   Pols_predicted  polymerase (DNA directed) sigma (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Pols_predicted  polymerase (DNA directed) sigma (predicted)      Symbol and Name status set to approved 70820 APPROVED