Susd5 (sushi domain containing 5) - Rat Genome Database

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Gene: Susd5 (sushi domain containing 5) Rattus norvegicus
Analyze
Symbol: Susd5
Name: sushi domain containing 5
RGD ID: 1561132
Description: Predicted to enable hyaluronic acid binding activity. Predicted to be involved in Notch signaling pathway. Predicted to be located in cell periphery and membrane. Orthologous to human SUSD5 (sushi domain containing 5); INTERACTS WITH atrazine; bisphenol A; C60 fullerene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC301039; RGD1561132; similar to KIAA0527 protein; sushi domain-containing protein 5
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
GRCr88122,874,968 - 122,914,327 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8122,875,553 - 122,914,327 (+)EnsemblGRCr8
mRatBN7.28113,996,771 - 114,036,133 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8113,997,362 - 114,035,861 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx8119,613,354 - 119,652,211 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08117,812,618 - 117,851,482 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08115,655,395 - 115,694,256 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.08122,331,489 - 122,370,684 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8122,331,583 - 122,368,368 (+)Ensemblrn6Rnor6.0
Rnor_5.08121,644,223 - 121,683,500 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48118,701,744 - 118,739,675 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8113,244,704 - 113,282,733 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:23117660  


Genomics

Comparative Map Data
Susd5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88122,874,968 - 122,914,327 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8122,875,553 - 122,914,327 (+)EnsemblGRCr8
mRatBN7.28113,996,771 - 114,036,133 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8113,997,362 - 114,035,861 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx8119,613,354 - 119,652,211 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08117,812,618 - 117,851,482 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08115,655,395 - 115,694,256 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.08122,331,489 - 122,370,684 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8122,331,583 - 122,368,368 (+)Ensemblrn6Rnor6.0
Rnor_5.08121,644,223 - 121,683,500 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48118,701,744 - 118,739,675 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8113,244,704 - 113,282,733 (+)NCBICelera
Cytogenetic Map8q32NCBI
SUSD5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38333,150,043 - 33,218,810 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl333,150,043 - 33,218,810 (-)Ensemblhg38GRCh38
GRCh37333,191,535 - 33,260,302 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36333,166,541 - 33,235,711 (-)NCBIBuild 36Build 36hg18NCBI36
Celera333,134,857 - 33,204,091 (-)NCBICelera
Cytogenetic Map3p22.3NCBI
HuRef333,132,229 - 33,201,330 (-)NCBIHuRef
CHM1_1333,141,600 - 33,210,758 (-)NCBICHM1_1
T2T-CHM13v2.0333,151,801 - 33,220,578 (-)NCBIT2T-CHM13v2.0
Susd5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399113,886,422 - 113,927,801 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9113,886,208 - 113,927,796 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm389114,057,354 - 114,098,733 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9114,057,140 - 114,098,728 (+)Ensemblmm10GRCm38
MGSCv379113,966,472 - 114,007,851 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv369113,905,838 - 113,947,428 (+)NCBIMGSCv36mm8
Celera9113,765,878 - 113,807,462 (+)NCBICelera
Cytogenetic Map9F3NCBI
cM Map964.23NCBI
Susd5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955421416,040 - 475,436 (-)Ensembl
ChiLan1.0NW_004955421417,061 - 475,387 (-)NCBIChiLan1.0ChiLan1.0
SUSD5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2233,127,171 - 33,198,419 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1333,134,188 - 33,203,065 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0333,078,312 - 33,142,135 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1333,380,732 - 33,443,438 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl333,380,733 - 33,443,438 (-)EnsemblpanPan2panpan1.1
SUSD5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1233,640,222 - 3,689,550 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl233,610,355 - 3,689,149 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha233,684,971 - 3,733,845 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0233,900,747 - 3,949,649 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl233,871,753 - 3,949,248 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1233,735,515 - 3,784,634 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0233,862,798 - 3,911,677 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0233,836,377 - 3,885,268 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Susd5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118190,342,417 - 190,392,833 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647323,481,259 - 23,531,079 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647323,481,018 - 23,531,079 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SUSD5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1319,040,076 - 19,084,907 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11319,040,040 - 19,085,323 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SUSD5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11577,645,824 - 77,712,416 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604151,024,943 - 51,091,846 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Susd5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478811,162,665 - 11,222,682 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462478811,160,337 - 11,228,836 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Susd5
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v18104,922,014 - 104,958,850 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Susd5
468 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:95
Count of miRNA genes:81
Interacting mature miRNAs:87
Transcripts:ENSRNOT00000028675
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)8105462581132782436Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)882352698127352698Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)880768445125768445Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)880768445125768445Rat
10450865Bw175Body weight QTL 1754.1total fat pad mass (VT:0015008)adipose tissue molecular composition measurement (CMO:0000484)884192326129192326Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8103375781129871912Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102413464132782436Rat
1599689Iddm24Insulin dependent diabetes mellitus QTL 244.720.001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)8122879213126360737Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)855428333127966348Rat
634332Pia18Pristane induced arthritis QTL 184joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)884192326132782436Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)885348065130348065Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)879394435132782436Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)898145073122898010Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)880768445125768445Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)880768445125768445Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)891340911131690273Rat

Markers in Region
D8Rat72  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr88122,897,838 - 122,898,010 (+)Marker Load Pipeline
mRatBN7.28114,019,644 - 114,019,816 (+)MAPPERmRatBN7.2
Rnor_6.08122,354,143 - 122,354,314NCBIRnor6.0
Rnor_5.08121,666,997 - 121,667,168UniSTSRnor5.0
RGSC_v3.48118,725,143 - 118,725,315RGDRGSC3.4
RGSC_v3.48118,725,144 - 118,725,315UniSTSRGSC3.4
Celera8113,266,197 - 113,266,368UniSTS
RGSC_v3.18118,744,599 - 118,744,770RGD
RH 3.4 Map81199.3UniSTS
RH 3.4 Map81199.3RGD
RH 2.0 Map8956.8RGD
SHRSP x BN Map875.25RGD
Cytogenetic Map8q32UniSTS
D8Got325  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28114,013,482 - 114,013,607 (+)MAPPERmRatBN7.2
Rnor_6.08122,347,979 - 122,348,103NCBIRnor6.0
Rnor_5.08121,660,833 - 121,660,957UniSTSRnor5.0
RGSC_v3.48118,718,726 - 118,718,850UniSTSRGSC3.4
Celera8113,260,462 - 113,260,586UniSTS
Cytogenetic Map8q32UniSTS


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
14 12 65 134 43 43 12 79 12 6 284 177 11 112 73 90 31 12 12

Sequence


Ensembl Acc Id: ENSRNOT00000028675   ⟹   ENSRNOP00000028675
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8122,875,553 - 122,914,327 (+)Ensembl
mRatBN7.2 Ensembl8113,997,362 - 114,035,861 (+)Ensembl
Rnor_6.0 Ensembl8122,331,583 - 122,368,368 (+)Ensembl
RefSeq Acc Id: NM_001399281   ⟹   NP_001386210
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88122,875,553 - 122,914,327 (+)NCBI
mRatBN7.28113,997,362 - 114,036,133 (+)NCBI
RefSeq Acc Id: XM_008766656   ⟹   XP_008764878
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88122,874,968 - 122,914,327 (+)NCBI
mRatBN7.28113,996,771 - 114,036,133 (+)NCBI
Rnor_6.08122,331,489 - 122,370,684 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039082675   ⟹   XP_038938603
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88122,902,557 - 122,914,327 (+)NCBI
mRatBN7.28114,024,363 - 114,036,133 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001386210 (Get FASTA)   NCBI Sequence Viewer  
  XP_008764878 (Get FASTA)   NCBI Sequence Viewer  
  XP_038938603 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL76996 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000028675
  ENSRNOP00000028675.4
RefSeq Acc Id: XP_008764878   ⟸   XM_008766656
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000028675   ⟸   ENSRNOT00000028675
RefSeq Acc Id: XP_038938603   ⟸   XM_039082675
- Peptide Label: isoform X2
RefSeq Acc Id: NP_001386210   ⟸   NM_001399281
- Peptide Label: precursor
- UniProtKB: D3ZSC1 (UniProtKB/TrEMBL),   A6I3N1 (UniProtKB/TrEMBL)
Protein Domains
Link   Sushi

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZSC1-F1-model_v2 AlphaFold D3ZSC1 1-621 view protein structure

Transcriptome

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

Promoters
RGD ID:13696353
Promoter ID:EPDNEW_R6876
Type:initiation region
Name:Susd5_1
Description:sushi domain containing 5
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_6.08122,331,504 - 122,331,564EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561132 AgrOrtholog
BioCyc Gene G2FUF-28933 BioCyc
Ensembl Genes ENSRNOG00000026951 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000028675 ENTREZGENE
  ENSRNOT00000028675.6 UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/TrEMBL
  Complement Module, domain 1 UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin_fold UniProtKB/TrEMBL
  Link UniProtKB/TrEMBL
  Sushi/SCR/CCP_sf UniProtKB/TrEMBL
  Sushi_domain_protein UniProtKB/TrEMBL
  Sushi_SCR_CCP UniProtKB/TrEMBL
NCBI Gene 301039 ENTREZGENE
PANTHER SUSHI DOMAIN-CONTAINING PROTEIN 5 UniProtKB/TrEMBL
  SUSHI DOMAIN-CONTAINING PROTEIN 5 UniProtKB/TrEMBL
Pfam Xlink UniProtKB/TrEMBL
PhenoGen Susd5 PhenoGen
PROSITE LINK_2 UniProtKB/TrEMBL
  SUSHI UniProtKB/TrEMBL
RatGTEx ENSRNOG00000026951 RatGTEx
SMART LINK UniProtKB/TrEMBL
Superfamily-SCOP C-type_lectin_fold UniProtKB/TrEMBL
  Complement_control_module UniProtKB/TrEMBL
UniProt A6I3N1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZSC1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Susd5  sushi domain containing 5   Susd5_predicted  sushi domain containing 5 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Susd5_predicted  sushi domain containing 5 (predicted)  RGD1561132_predicted  similar to KIAA0527 protein (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1561132_predicted  similar to KIAA0527 protein (predicted)  LOC301039  similar to KIAA0527 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC301039  similar to KIAA0527 protein      Symbol and Name status set to provisional 70820 PROVISIONAL