Shisal2a (shisa like 2A) - Rat Genome Database

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Gene: Shisal2a (shisa like 2A) Rattus norvegicus
Analyze
Symbol: Shisal2a
Name: shisa like 2A
RGD ID: 1593542
Description: Predicted to be located in membrane. Orthologous to human SHISAL2A (shisa like 2A); INTERACTS WITH trichloroethene; acrylamide (ortholog); aflatoxin B1 (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Fam159a; family with sequence similarity 159, member A; hypothetical protein LOC689322; LOC689322; membrane protein FAM159A
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
GRCr85128,339,304 - 128,355,227 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5128,339,304 - 128,355,227 (-)EnsemblGRCr8
mRatBN7.25123,110,577 - 123,126,501 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5123,110,505 - 123,126,663 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx5125,733,140 - 125,749,199 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05127,456,195 - 127,472,254 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05127,507,513 - 127,523,572 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.05127,967,880 - 127,983,690 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5127,967,903 - 127,983,515 (-)Ensemblrn6Rnor6.0
Rnor_5.05131,813,614 - 131,829,419 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45129,466,053 - 129,481,665 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5121,847,701 - 121,863,493 (-)NCBICelera
Cytogenetic Map5q34NCBI
JBrowse:




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

Cellular Component
membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Shisal2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85128,339,304 - 128,355,227 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5128,339,304 - 128,355,227 (-)EnsemblGRCr8
mRatBN7.25123,110,577 - 123,126,501 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5123,110,505 - 123,126,663 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx5125,733,140 - 125,749,199 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05127,456,195 - 127,472,254 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05127,507,513 - 127,523,572 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.05127,967,880 - 127,983,690 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5127,967,903 - 127,983,515 (-)Ensemblrn6Rnor6.0
Rnor_5.05131,813,614 - 131,829,419 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45129,466,053 - 129,481,665 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5121,847,701 - 121,863,493 (-)NCBICelera
Cytogenetic Map5q34NCBI
SHISAL2A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38152,632,788 - 52,669,683 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl152,633,168 - 52,669,683 (+)Ensemblhg38GRCh38
GRCh37153,098,840 - 53,135,355 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36152,871,654 - 52,895,325 (+)NCBIBuild 36Build 36hg18NCBI36
Celera151,385,843 - 51,409,503 (+)NCBICelera
Cytogenetic Map1p32.3NCBI
HuRef151,214,992 - 51,238,627 (+)NCBIHuRef
CHM1_1153,216,460 - 53,240,132 (+)NCBICHM1_1
T2T-CHM13v2.0152,514,310 - 52,551,222 (+)NCBIT2T-CHM13v2.0
Shisal2a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394108,224,963 - 108,243,980 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4108,224,974 - 108,240,546 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm384108,367,766 - 108,386,783 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4108,367,777 - 108,383,349 (-)Ensemblmm10GRCm38
MGSCv374108,040,382 - 108,055,954 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv364107,873,294 - 107,881,749 (-)NCBIMGSCv36mm8
Celera4106,711,181 - 106,726,734 (-)NCBICelera
Cytogenetic Map4C7NCBI
cM Map450.47NCBI
Shisal2a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554646,520,502 - 6,547,064 (-)Ensembl
ChiLan1.0NW_0049554646,520,481 - 6,547,181 (-)NCBIChiLan1.0ChiLan1.0
SHISAL2A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21174,192,128 - 174,216,390 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11173,334,502 - 173,358,749 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0151,894,519 - 51,918,593 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1153,502,048 - 53,537,270 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl153,502,048 - 53,525,288 (+)EnsemblpanPan2panpan1.1
SHISAL2A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1158,743,736 - 8,761,776 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl158,743,736 - 8,762,374 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha158,896,564 - 8,913,984 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0158,866,968 - 8,884,822 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl158,866,970 - 8,885,399 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1158,679,742 - 8,698,019 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0158,768,811 - 8,786,648 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0158,785,176 - 8,803,471 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Shisal2a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505867,056,869 - 67,077,546 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365228,338,749 - 8,359,568 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365228,338,772 - 8,359,398 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SHISAL2A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6159,553,772 - 159,574,405 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.16159,552,988 - 159,574,225 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SHISAL2A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12080,286,723 - 80,312,021 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603336,959,812 - 36,993,743 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Shisal2a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624859564,156 - 586,593 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624859563,887 - 586,719 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Shisal2a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1146,475,020 - 46,490,450 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Shisal2a
154 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:148
Count of miRNA genes:118
Interacting mature miRNAs:125
Transcripts:ENSRNOT00000043054
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
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)5102105698152749382Rat
2303586Gluco52Glucose level QTL 522blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)5100826632145826632Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5116702075161702075Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)538207390136631402Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)584630798129630798Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)599905133172190305Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)548523123134369373Rat
1582230Bw78Body weight QTL 783.20.0016epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)5124314582133270832Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)592583776137583776Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)565089051166764498Rat
1598859Cm66Cardiac mass QTL 662heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)584630798129630798Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5112142946157142946Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5112142946157142946Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5110770739155770739Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)551657967166600247Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5112142946157142946Rat
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)592583776137583776Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)598972960143972960Rat
1581510Cm54Cardiac mass QTL 543.40.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)5125969677172190305Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)592583776137583776Rat
2303618Vencon1Ventilatory control QTL 13.8respiration trait (VT:0001943)oxygen consumption (CMO:0002169)5100826632145826632Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5111236572156236572Rat
1598846Bp293Blood pressure QTL 2933.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)584630798129630798Rat
7394710Emca12Estrogen-induced mammary cancer QTL 12mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)594034903139034903Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5114131300159131300Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5125969677156302135Rat
1358909Kidm25Kidney mass QTL 251.87kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)595062526133270832Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)560601597137492949Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5112142946157142946Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5116702075161702075Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5112142946157142946Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5116702075161702075Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)536460764136631402Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)574335621156302135Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5116702075161702075Rat
1298086Bp156Blood pressure QTL 156arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)589369373134369373Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)570969494136328156Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5114131300159131300Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)597492524133270832Rat
6903316Bw113Body weight QTL 11320.0103body mass (VT:0001259)body weight (CMO:0000012)592881678137881678Rat
1358889Bp261Blood pressure QTL 2612.86arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)595062526133270832Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)5104262817153890625Rat


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
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
11 4 59 88 73 72 47 9 47 3 191 86 74 43 90 25 3 3

Sequence


Ensembl Acc Id: ENSRNOT00000043054   ⟹   ENSRNOP00000048458
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5128,339,304 - 128,355,227 (-)Ensembl
mRatBN7.2 Ensembl5123,110,505 - 123,126,663 (-)Ensembl
Rnor_6.0 Ensembl5127,967,903 - 127,983,515 (-)Ensembl
RefSeq Acc Id: NM_001402233   ⟹   NP_001389162
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85128,339,304 - 128,355,227 (-)NCBI
mRatBN7.25123,110,577 - 123,126,501 (-)NCBI
RefSeq Acc Id: XM_063288440   ⟹   XP_063144510
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85128,347,423 - 128,354,933 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001389162 (Get FASTA)   NCBI Sequence Viewer  
  XP_063144510 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000048458
  ENSRNOP00000048458.3
Ensembl Acc Id: ENSRNOP00000048458   ⟸   ENSRNOT00000043054
RefSeq Acc Id: NP_001389162   ⟸   NM_001402233
- UniProtKB: D3ZEV9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063144510   ⟸   XM_063288440
- Peptide Label: isoform X1
Protein Domains
Shisa N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZEV9-F1-model_v2 AlphaFold D3ZEV9 1-189 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:1593542 AgrOrtholog
BioCyc Gene G2FUF-40389 BioCyc
Ensembl Genes ENSRNOG00000030641 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000043054 ENTREZGENE
  ENSRNOT00000043054.5 UniProtKB/TrEMBL
InterPro Shisa UniProtKB/TrEMBL
  Shisa_N UniProtKB/TrEMBL
NCBI Gene 689322 ENTREZGENE
PANTHER PROTEIN SHISA-LIKE-2A UniProtKB/TrEMBL
  PTHR31395 UniProtKB/TrEMBL
Pfam Shisa_N UniProtKB/TrEMBL
PhenoGen Shisal2a PhenoGen
RatGTEx ENSRNOG00000030641 RatGTEx
UniProt D3ZEV9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-10-30 Shisal2a  shisa like 2A  Fam159a  family with sequence similarity 159, member A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-23 Fam159a  family with sequence similarity 159, member A  LOC689322  hypothetical protein LOC689322  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC689322  hypothetical protein LOC689322  LOC683693  hypothetical protein LOC683693  Data merged from RGD:1584460 1643240 APPROVED
2006-11-20 LOC689322  hypothetical protein LOC689322      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC683693  hypothetical protein LOC683693      Symbol and Name status set to provisional 70820 PROVISIONAL