Bysl (bystin-like) - Rat Genome Database

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Gene: Bysl (bystin-like) Rattus norvegicus
Analyze
Symbol: Bysl
Name: bystin-like
RGD ID: 727959
Description: Predicted to enable snoRNA binding activity. Involved in several processes, including cellular response to growth factor stimulus; cellular response to interleukin-1; and cellular response to lipopolysaccharide. Located in cell projection; cytoplasmic microtubule; and perinuclear region of cytoplasm. Orthologous to human BYSL (bystin like); PARTICIPATES IN ribosome biogenesis pathway; INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: bystin
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
GRCr8920,880,341 - 20,890,092 (+)NCBIGRCr8
mRatBN7.2913,382,806 - 13,392,557 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl913,382,557 - 13,394,339 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx921,962,562 - 21,972,307 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0927,026,687 - 27,036,467 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0925,325,963 - 25,335,708 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0915,393,461 - 15,403,212 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl915,393,330 - 15,403,117 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0914,314,823 - 14,324,574 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera911,134,028 - 11,143,788 (+)NCBICelera
Cytogenetic Map9q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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. An overview of pre-ribosomal RNA processing in eukaryotes. Henras AK, etal., Wiley Interdiscip Rev RNA. 2015 Mar-Apr;6(2):225-42. doi: 10.1002/wrna.1269. Epub 2014 Oct 27.
3. Expression of trophinin and bystin identifies distinct cell types in the germinal zones of adult rat brain. Ma L, etal., Eur J Neurosci. 2006 May;23(9):2265-76.
4. NCBI rat LocusLink and RefSeq merged data October 15, 2003 NCBI rat LocusLink and RefSeq merged data October 15, 2003
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
7. Bystin as a novel marker for reactive astrocytes in the adult rat brain following injury. Sheng J, etal., Eur J Neurosci. 2004 Aug;20(4):873-84.
8. Both endonucleolytic and exonucleolytic cleavage mediate ITS1 removal during human ribosomal RNA processing. Sloan KE, etal., J Cell Biol. 2013 Mar 4;200(5):577-88. doi: 10.1083/jcb.201207131. Epub 2013 Feb 25.
9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
10. CK1delta and CK1epsilon are components of human 40S subunit precursors required for cytoplasmic 40S maturation. Zemp I, etal., J Cell Sci. 2014 Mar 15;127(Pt 6):1242-53. doi: 10.1242/jcs.138719. Epub 2014 Jan 14.
Additional References at PubMed
PMID:17055491   PMID:17242206   PMID:19946888   PMID:22658674   PMID:26711351  


Genomics

Comparative Map Data
Bysl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8920,880,341 - 20,890,092 (+)NCBIGRCr8
mRatBN7.2913,382,806 - 13,392,557 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl913,382,557 - 13,394,339 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx921,962,562 - 21,972,307 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0927,026,687 - 27,036,467 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0925,325,963 - 25,335,708 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0915,393,461 - 15,403,212 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl915,393,330 - 15,403,117 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0914,314,823 - 14,324,574 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera911,134,028 - 11,143,788 (+)NCBICelera
Cytogenetic Map9q12NCBI
BYSL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38641,908,759 - 41,933,046 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl641,921,499 - 41,933,046 (+)EnsemblGRCh38hg38GRCh38
GRCh37641,889,237 - 41,900,784 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36641,996,943 - 42,008,762 (+)NCBINCBI36Build 36hg18NCBI36
Build 34641,996,942 - 42,008,760NCBI
Celera643,441,757 - 43,453,576 (+)NCBICelera
Cytogenetic Map6p21.1NCBI
HuRef641,607,755 - 41,619,629 (+)NCBIHuRef
CHM1_1641,891,723 - 41,903,544 (+)NCBICHM1_1
T2T-CHM13v2.0641,737,319 - 41,761,606 (+)NCBIT2T-CHM13v2.0
Bysl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391747,910,256 - 47,922,417 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1747,910,256 - 47,922,417 (-)EnsemblGRCm39 Ensembl
GRCm381747,599,331 - 47,611,492 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1747,599,331 - 47,611,492 (-)EnsemblGRCm38mm10GRCm38
MGSCv371747,736,280 - 47,748,441 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361747,063,271 - 47,074,675 (-)NCBIMGSCv36mm8
Celera1751,036,357 - 51,048,455 (-)NCBICelera
Cytogenetic Map17CNCBI
cM Map1723.63NCBI
Bysl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554378,257,081 - 8,266,875 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554378,257,081 - 8,266,627 (+)NCBIChiLan1.0ChiLan1.0
BYSL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2556,412,841 - 56,424,402 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1652,282,749 - 52,294,313 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0641,504,652 - 41,516,541 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1642,806,531 - 42,818,684 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl642,806,531 - 42,821,518 (+)Ensemblpanpan1.1panPan2
BYSL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11210,580,881 - 10,592,313 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1210,581,217 - 10,591,923 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1210,610,184 - 10,621,641 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01211,061,584 - 11,073,073 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1211,061,612 - 11,074,256 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11210,591,612 - 10,603,068 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01210,675,587 - 10,687,032 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01210,769,509 - 10,780,999 (+)NCBIUU_Cfam_GSD_1.0
Bysl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494646,063,609 - 46,073,118 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647617,888,335 - 17,896,268 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647617,887,998 - 17,896,598 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BYSL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl737,074,515 - 37,088,533 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1737,074,517 - 37,086,753 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2742,476,640 - 42,487,309 (+)NCBISscrofa10.2Sscrofa10.2susScr3
BYSL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11730,230,001 - 30,241,684 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1730,230,337 - 30,241,417 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604441,921,109 - 41,933,105 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Bysl
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475417,195,251 - 17,205,198 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475417,195,248 - 17,204,827 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Bysl
72 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:50
Count of miRNA genes:49
Interacting mature miRNAs:50
Transcripts:ENSRNOT00000075630
Prediction methods:Miranda, Rnahybrid
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
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9114209783Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
1578675Bss17Bone structure and strength QTL 173.8femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)9336865213533896Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat

Markers in Region
BE107820  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2913,390,571 - 13,390,730 (+)MAPPERmRatBN7.2
Rnor_6.0915,401,227 - 15,401,385NCBIRnor6.0
Rnor_5.0914,322,589 - 14,322,747UniSTSRnor5.0
Celera911,141,794 - 11,141,952UniSTS
RH 3.4 Map948.5UniSTS
RH140270  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2913,392,226 - 13,392,432 (+)MAPPERmRatBN7.2
Rnor_6.0915,402,882 - 15,403,087NCBIRnor6.0
Rnor_5.0914,324,244 - 14,324,449UniSTSRnor5.0
Celera911,143,458 - 11,143,663UniSTS
RH 3.4 Map946.9UniSTS


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 3 35 38 27 18 27 1 4 66 27 39 11 1
Low 8 19 14 1 14 7 7 8 8 2 7
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000075630   ⟹   ENSRNOP00000067656
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl913,382,557 - 13,394,339 (+)Ensembl
Rnor_6.0 Ensembl915,393,330 - 15,403,117 (+)Ensembl
RefSeq Acc Id: NM_182674   ⟹   NP_872615
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8920,880,341 - 20,890,092 (+)NCBI
mRatBN7.2913,382,806 - 13,392,557 (+)NCBI
Rnor_6.0915,393,461 - 15,403,212 (+)NCBI
Rnor_5.0914,314,823 - 14,324,574 (+)NCBI
Celera911,134,028 - 11,143,788 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_872615 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79030 (Get FASTA)   NCBI Sequence Viewer  
  AAP22286 (Get FASTA)   NCBI Sequence Viewer  
  EDM18889 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000067656
  ENSRNOP00000067656.1
GenBank Protein Q80WL2 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_872615   ⟸   NM_182674
- UniProtKB: Q6AYI7 (UniProtKB/Swiss-Prot),   Q80WL2 (UniProtKB/Swiss-Prot),   M0RDF7 (UniProtKB/TrEMBL),   A6JIJ3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067656   ⟸   ENSRNOT00000075630

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q80WL2-F1-model_v2 AlphaFold Q80WL2 1-436 view protein structure

Transcriptome

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

Promoters
RGD ID:13696497
Promoter ID:EPDNEW_R7021
Type:multiple initiation site
Name:Bysl_1
Description:bystin-like
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_6.0915,393,463 - 15,393,523EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:727959 AgrOrtholog
BioCyc Gene G2FUF-28270 BioCyc
Ensembl Genes ENSRNOG00000049121 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000075630 ENTREZGENE
  ENSRNOT00000075630.3 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7114086 IMAGE-MGC_LOAD
InterPro Bystin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:359727 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93957 IMAGE-MGC_LOAD
NCBI Gene 359727 ENTREZGENE
PANTHER BYSTIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12821 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Bystin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB BYSL RGD
PhenoGen Bysl PhenoGen
RatGTEx ENSRNOG00000049121 RatGTEx
UniProt A6JIJ3 ENTREZGENE, UniProtKB/TrEMBL
  BYST_RAT UniProtKB/Swiss-Prot
  M0RDF7 ENTREZGENE, UniProtKB/TrEMBL
  Q6AYI7 ENTREZGENE
  Q80WL2 ENTREZGENE
UniProt Secondary Q6AYI7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-07-08 Bysl  bystin-like      Symbol and Name status set to approved 1299863 APPROVED