Ly49si4-ps1 (immunoreceptor Ly49si4, pseudogene 1) - Rat Genome Database

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Gene: Ly49si4-ps1 (immunoreceptor Ly49si4, pseudogene 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Ly49si4-ps1 (Ensembl: LOC690097)
Name: immunoreceptor Ly49si4, pseudogene 1 (Ensembl:similar to immunoreceptor Ly49si3)
RGD ID: 1585116
Description:
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: MODEL
Previously known as: immunoreceptor Ly49si3-like; killer cell lectin-like receptor 6-like; killer cell lectin-like receptor 7; LOC102546863; LOC690097; similar to immunoreceptor Ly49si3; T-cell surface glycoprotein YE1/48-like
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84165,409,744 - 165,470,136 (-)NCBIGRCr8
mRatBN7.24163,724,510 - 163,782,315 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.04164,026,176 - 164,053,682 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4164,042,258 - 164,051,812 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04212,692,296 - 212,702,452 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44167,587,804 - 167,611,778 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera4152,367,122 - 152,427,969 (-)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline

Genomics

Variants

.
Variants in Ly49si4-ps1
405 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
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)4124778595169778595Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
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)4144639524182687754Rat
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)4144639524182687754Rat
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)4144639524182687754Rat
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)4144639524182687754Rat
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)4144639524182687754Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
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)4147278504167139601Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157710145182687754Rat

Markers in Region
D4Won31  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24163,743,676 - 163,743,915 (+)MAPPERmRatBN7.2
mRatBN7.24163,524,459 - 163,524,674 (+)MAPPERmRatBN7.2
Rnor_6.04163,831,396 - 163,831,610NCBIRnor6.0
Rnor_6.04164,046,275 - 164,046,513NCBIRnor6.0
Rnor_5.04212,695,090 - 212,695,328UniSTSRnor5.0
Rnor_5.04212,481,837 - 212,482,051UniSTSRnor5.0
RGSC_v3.44167,369,280 - 167,369,494UniSTSRGSC3.4
RGSC_v3.44167,606,241 - 167,606,479UniSTSRGSC3.4
Celera4152,420,732 - 152,420,970UniSTS
Celera4152,200,561 - 152,200,775UniSTS
Cytogenetic Map4q42UniSTS
D4Won4  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera4152,183,258 - 152,183,474UniSTS
Celera4152,394,294 - 152,394,584UniSTS
Cytogenetic Map4q42UniSTS


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 1 10 4 5
Low 3 17 46 31 9 31 8 8 1 20 19 6 8
Below cutoff 10 4 4 4 3 20 13 12

Sequence


RefSeq Acc Id: ENSRNOT00000078267   ⟹   ENSRNOP00000075315
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4164,042,258 - 164,049,599 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000085719   ⟹   ENSRNOP00000075581
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4164,042,620 - 164,051,812 (-)Ensembl
RefSeq Acc Id: XM_003753951   ⟹   XP_003753999
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4152,400,068 - 152,427,939 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006225082   ⟹   XP_006225144
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4152,400,068 - 152,427,936 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006225083   ⟹   XP_006225145
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4152,416,415 - 152,427,963 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763433   ⟹   XP_008761655
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.04164,026,176 - 164,053,682 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008775854   ⟹   XP_008774076
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4152,417,116 - 152,427,969 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017602878   ⟹   XP_017458367
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4152,367,122 - 152,427,958 (-)NCBI
Sequence:
RefSeq Acc Id: XR_001843480
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera4152,400,068 - 152,427,961 (-)NCBI
Sequence:
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:1585116 AgrOrtholog
BioCyc Gene G2FUF-42754 BioCyc
Ensembl Genes ENSRNOG00000058993 Ensembl
NCBI Gene 690097 ENTREZGENE
PhenoGen Ly49si4-ps1 PhenoGen
RatGTEx ENSRNOG00000058993 RatGTEx


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-10 Ly49si4-ps1  immunoreceptor Ly49si4, pseudogene 1  LOC690097  similar to immunoreceptor Ly49si3  Symbol and Name Changed 1299863 APPROVED
2015-07-29 LOC690097  similar to immunoreceptor Ly49si3  LOC102546863  killer cell lectin-like receptor 6-like  Data merged from RGD:7548878 737654 PROVISIONAL
2013-12-17 LOC102546863  killer cell lectin-like receptor 6-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2013-05-24 LOC690097  similar to immunoreceptor Ly49si3  LOC100364786  immunoreceptor Ly49si3-like  Data merged from RGD:2320379 1643240 APPROVED
2010-05-05 LOC100364786  immunoreceptor Ly49si3-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-01-09 LOC690097  similar to immunoreceptor Ly49si3  LOC684059  similar to immunoreceptor Ly49si1  Data merged from RGD:1595187 1643240 APPROVED
2006-11-20 LOC684059  similar to immunoreceptor Ly49si1      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC690097  similar to immunoreceptor Ly49si3      Symbol and Name status set to provisional 70820 PROVISIONAL