Scarna12 (small Cajal body-specific RNA 12) - Rat Genome Database

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Gene: Scarna12 (small Cajal body-specific RNA 12) Rattus norvegicus
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Symbol: Scarna12 (Ensembl: LOC120102747)
Name: small Cajal body-specific RNA 12 (Ensembl:small nucleolar RNA U89)
RGD ID: 41081789
Description: Predicted to be involved in RNA processing. Predicted to be located in nucleolus. Orthologous to human SCARNA12 (small Cajal body-specific RNA 12); INTERACTS WITH (+)-catechin (ortholog); aflatoxin B1 (ortholog); bisphenol A (ortholog).
Type: snorna
RefSeq Status: MODEL
Previously known as: AC129138.1; LOC120102747; small nucleolar RNA U89
RGD Orthologs
Human
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84159,206,825 - 159,207,085 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4159,206,825 - 159,207,085 (+)EnsemblGRCr8
mRatBN7.24157,520,539 - 157,520,799 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4157,520,539 - 157,520,799 (+)EnsemblmRatBN7.2
Rnor_6.0 Ensembl4157,233,646 - 157,233,906 (+)NCBIrn6Rnor6.0
Cytogenetic Map4q42NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

Genomics

Comparative Map Data
Scarna12
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84159,206,825 - 159,207,085 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4159,206,825 - 159,207,085 (+)EnsemblGRCr8
mRatBN7.24157,520,539 - 157,520,799 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4157,520,539 - 157,520,799 (+)EnsemblmRatBN7.2
Rnor_6.0 Ensembl4157,233,646 - 157,233,906 (+)NCBIrn6Rnor6.0
Cytogenetic Map4q42NCBI
SCARNA12
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38126,967,337 - 6,967,606 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl126,967,337 - 6,967,606 (-)Ensemblhg38GRCh38
GRCh37127,076,500 - 7,076,769 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36126,946,761 - 6,947,030 (-)NCBIBuild 36Build 36hg18NCBI36
Celera128,697,519 - 8,697,788 (-)NCBICelera
Cytogenetic Map12p13.31NCBI
HuRef126,934,965 - 6,935,234 (-)NCBIHuRef
CHM1_1127,075,453 - 7,075,722 (-)NCBICHM1_1
T2T-CHM13v2.0126,980,812 - 6,981,081 (-)NCBIT2T-CHM13v2.0
LOC119866455
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha278,537,858 - 8,538,122 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02738,431,168 - 38,431,432 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.12738,306,050 - 38,306,314 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02738,347,031 - 38,347,295 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0278,016,621 - 8,016,885 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0

Variants

.
Variants in Scarna12
2 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4146370897184426481Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4134095016179095016Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4149763204169799698Rat
61446Coreg2Compensatory renal growth QTL 23.5kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)4150095743159267220Rat
6478757Anxrr44Anxiety related response QTL 440.01087locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4146370897184426481Rat
1358364Sradr4Stress Responsive Adrenal Weight QTL 44.92adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)4131384565176384565Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4123870974168870974Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4140059299181024663Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4117559384162559384Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4157292416184426481Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4106848959168870974Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494638356168870820Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4127263297172263297Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4126334185171334185Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4147299608184426481Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
6478782Anxrr52Anxiety related response QTL 520.02091locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4123870974168870974Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4124700988169700988Rat
6478720Alc23Alcohol consumption QTL 230.00509drinking behavior trait (VT:0001422)ethanol drink intake rate to body weight ratio (CMO:0001616)4155834926184426481Rat
6478785Anxrr53Anxiety related response QTL 530.01397locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)4100752691179366077Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4137447185182447185Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4137430611182430611Rat
6478728Anxrr36Anxiety related response QTL 360.01061locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486709649168870974Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4134199006168870974Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4148121375176967367Rat
6478733Anxrr37Anxiety related response QTL 370.00095locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4123870974168870974Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)465495851159259805Rat
6478737Anxrr38Anxiety related response QTL 380.00159locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4116184844161184844Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4148834094168870974Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
sensory system
visual system
7 1 10 41 51 96 65 5 42 24 17 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts XR_005504338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000084518
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4159,206,825 - 159,207,085 (+)Ensembl
mRatBN7.2 Ensembl4157,520,539 - 157,520,799 (+)Ensembl
RefSeq Acc Id: XR_005504338
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,206,825 - 159,207,085 (+)NCBI
mRatBN7.24157,520,539 - 157,520,799 (+)NCBI
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:41081789 AgrOrtholog
BioCyc Gene G2FUF-43087 BioCyc
Ensembl Genes ENSRNOG00000052563 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000084518 ENTREZGENE
NCBI Gene LOC120102747 ENTREZGENE
PhenoGen Scarna12 PhenoGen
RatGTEx ENSRNOG00000052563 RatGTEx
RNAcentral URS00006F0608 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2025-07-01 Scarna12  small Cajal body-specific RNA 12  LOC120102747  small nucleolar RNA U89  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2022-06-02 LOC120102747  small nucleolar RNA U89  AC129138.1    Data merged from RGD:15007248 737654 PROVISIONAL
2021-01-27 LOC120102747  small nucleolar RNA U89      Symbol and Name status set to provisional 70820 PROVISIONAL
2019-11-08 AC129138.1        Symbol and Name status set to provisional 45752 PROVISIONAL