Sec16b (SEC16 homolog B, endoplasmic reticulum export factor) - Rat Genome Database

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Gene: Sec16b (SEC16 homolog B, endoplasmic reticulum export factor) Rattus norvegicus
Analyze
Symbol: Sec16b
Name: SEC16 homolog B, endoplasmic reticulum export factor
RGD ID: 621658
Description: Predicted to be involved in several processes, including COPII vesicle coating; peroxisome fission; and protein localization to endoplasmic reticulum exit site. Predicted to localize to ER to Golgi transport vesicle membrane and endoplasmic reticulum exit site. Orthologous to several human genes including CRYZL2P-SEC16B (CRYZL2P-SEC16B readthrough); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: leucine zipper transcription regulator 2; Lztr2; protein transport protein Sec16B; regucalcin gene promoter region related protein; regucalcin gene promoter region-related protein p117; RGPR; RGPR-p117; SEC16 homolog B; SEC16 homolog B (S. cerevisiae)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21369,665,757 - 69,727,199 (+)NCBI
Rnor_6.0 Ensembl1375,175,254 - 75,216,941 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01375,153,074 - 75,216,941 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01380,090,341 - 80,133,075 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41372,787,822 - 72,830,908 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11372,802,009 - 72,845,095 (+)NCBI
Celera1369,513,230 - 69,555,087 (+)NCBICelera
Cytogenetic Map13q22NCBI
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

References

Additional References at PubMed
PMID:16211248   PMID:16273285   PMID:16676356   PMID:17549392   PMID:17786289   PMID:21478858   PMID:21768384   PMID:22355596  


Genomics

Comparative Map Data
Sec16b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21369,665,757 - 69,727,199 (+)NCBI
Rnor_6.0 Ensembl1375,175,254 - 75,216,941 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01375,153,074 - 75,216,941 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01380,090,341 - 80,133,075 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41372,787,822 - 72,830,908 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11372,802,009 - 72,845,095 (+)NCBI
Celera1369,513,230 - 69,555,087 (+)NCBICelera
Cytogenetic Map13q22NCBI
SEC16B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1177,923,956 - 177,984,303 (-)EnsemblGRCh38hg38GRCh38
GRCh381177,928,788 - 177,984,284 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371177,897,923 - 177,953,419 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361176,164,865 - 176,205,673 (-)NCBINCBI36hg18NCBI36
Build 341174,629,937 - 174,670,707NCBI
Celera1151,007,141 - 151,047,948 (-)NCBI
Cytogenetic Map1q25.2NCBI
HuRef1149,125,532 - 149,166,504 (-)NCBIHuRef
CHM1_11179,322,172 - 179,362,966 (-)NCBICHM1_1
Sec16b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391157,334,303 - 157,395,995 (+)NCBIGRCm39mm39
GRCm39 Ensembl1157,334,298 - 157,395,995 (+)Ensembl
GRCm381157,506,733 - 157,568,425 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1157,506,728 - 157,568,425 (+)EnsemblGRCm38mm10GRCm38
MGSCv371159,436,927 - 159,498,556 (+)NCBIGRCm37mm9NCBIm37
MGSCv361159,343,487 - 159,405,102 (+)NCBImm8
MGSCv361158,657,717 - 158,681,716 (+)NCBImm8
Celera1159,917,487 - 159,979,158 (+)NCBICelera
Cytogenetic Map1H1NCBI
Sec16b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540617,458,635 - 17,491,920 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540617,458,699 - 17,509,379 (-)NCBIChiLan1.0ChiLan1.0
LOC100985485
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11157,138,640 - 157,179,830 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1157,139,709 - 157,179,830 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01153,445,298 - 153,555,082 (-)NCBIMhudiblu_PPA_v0panPan3
SEC16B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1721,683,310 - 21,739,914 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl721,698,411 - 21,738,954 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha721,210,066 - 21,266,406 (+)NCBI
ROS_Cfam_1.0721,423,323 - 21,479,479 (+)NCBI
UMICH_Zoey_3.1721,329,712 - 21,386,297 (+)NCBI
UNSW_CanFamBas_1.0721,437,354 - 21,493,768 (+)NCBI
UU_Cfam_GSD_1.0721,573,233 - 21,629,637 (+)NCBI
Sec16b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934492,936,851 - 92,974,455 (+)NCBI
SpeTri2.0NW_00493648110,782,988 - 10,821,204 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEC16B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9119,778,663 - 119,842,930 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19119,778,660 - 119,842,962 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29131,339,683 - 131,349,982 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103230534
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12551,309,875 - 51,379,187 (+)NCBI
ChlSab1.1 Ensembl2551,332,937 - 51,380,520 (+)Ensembl
Vero_WHO_p1.0NW_02366605552,883,508 - 52,930,698 (+)NCBI
Sec16b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247714,200,427 - 4,274,020 (+)NCBI

Position Markers
BE108065  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21369,705,536 - 69,705,704 (+)MAPPER
Rnor_6.01375,195,888 - 75,196,055NCBIRnor6.0
Rnor_5.01380,112,253 - 80,112,420UniSTSRnor5.0
RGSC_v3.41372,808,979 - 72,809,146UniSTSRGSC3.4
Celera1369,533,628 - 69,533,795UniSTS
RH 3.4 Map13411.4UniSTS
Cytogenetic Map13q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131107975663Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13901690682995569Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13901690682995569Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1312193394108478121Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1324502279108770533Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1335301263107975663Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133614753399968921Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133734634882346348Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133937292784372927Rat
10755495Bp387Blood pressure QTL 3873.78arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133950130093652524Rat
4889861Pur29Proteinuria QTL 2913.80.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)134231074486833540Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)134231074487310744Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)134250834587508345Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)134250834587508345Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)134357571788575717Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134567662990676629Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)135108098996080989Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135156924896569248Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)135157782490675199Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1357903612102903612Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1362975663107975663Rat
2303028Bp329Blood pressure QTL 329arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136361128379034003Rat
724564Uae11Urinary albumin excretion QTL 115.7urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)136450135182995671Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)136500824591629354Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1366971778111971778Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1371230858114033958Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1371230858114033958Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1372583716114033958Rat
8655951Rf63Renal function QTL 6312.2blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)137456837882995671Rat
1300166Kidm6Kidney mass QTL 63.93kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)137456837892916783Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)137456837892916783Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)137456837892916783Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:859
Count of miRNA genes:281
Interacting mature miRNAs:347
Transcripts:ENSRNOT00000007321, ENSRNOT00000044008
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.


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 2 2 31 31 31 3 5
Low 1 41 26 10 19 10 8 11 74 32 36 11 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769686 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091135 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091136 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091137 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091138 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091139 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091140 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091143 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091144 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091145 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091146 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091147 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091148 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB060653 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB178524 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000007321   ⟹   ENSRNOP00000007321
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1375,177,965 - 75,216,933 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000044008   ⟹   ENSRNOP00000046286
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1375,175,254 - 75,216,941 (+)Ensembl
RefSeq Acc Id: NM_053571   ⟹   NP_446023
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,684,291 - 69,727,199 (+)NCBI
Rnor_6.01375,175,254 - 75,216,941 (+)NCBI
Rnor_5.01380,090,341 - 80,133,075 (+)NCBI
RGSC_v3.41372,787,822 - 72,830,908 (+)RGD
Celera1369,513,230 - 69,555,087 (+)RGD
Sequence:
RefSeq Acc Id: XM_008769682   ⟹   XP_008767904
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01375,153,074 - 75,216,941 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769685   ⟹   XP_008767907
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01375,153,074 - 75,216,941 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769686   ⟹   XP_008767908
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01375,178,105 - 75,216,941 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598948   ⟹   XP_017454437
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01375,153,074 - 75,216,941 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598949   ⟹   XP_017454438
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01375,173,729 - 75,216,941 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598950   ⟹   XP_017454439
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01375,173,729 - 75,216,941 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598951   ⟹   XP_017454440
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01375,173,729 - 75,216,941 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039091135   ⟹   XP_038947063
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,676,781 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091136   ⟹   XP_038947064
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,676,781 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091137   ⟹   XP_038947065
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,665,757 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091138   ⟹   XP_038947066
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,665,757 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091139   ⟹   XP_038947067
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,684,217 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091140   ⟹   XP_038947068
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,681,201 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091141   ⟹   XP_038947069
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,683,036 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091143   ⟹   XP_038947071
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,676,800 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091144   ⟹   XP_038947072
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,676,797 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091145   ⟹   XP_038947073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,684,217 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091146   ⟹   XP_038947074
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,676,803 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091147   ⟹   XP_038947075
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,687,562 - 69,727,199 (+)NCBI
RefSeq Acc Id: XM_039091148   ⟹   XP_038947076
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21369,676,783 - 69,716,262 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_446023   ⟸   NM_053571
- Sequence:
RefSeq Acc Id: XP_008767904   ⟸   XM_008769682
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008767907   ⟸   XM_008769685
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008767908   ⟸   XM_008769686
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017454437   ⟸   XM_017598948
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454439   ⟸   XM_017598950
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454438   ⟸   XM_017598949
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454440   ⟸   XM_017598951
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000007321   ⟸   ENSRNOT00000007321
RefSeq Acc Id: ENSRNOP00000046286   ⟸   ENSRNOT00000044008
RefSeq Acc Id: XP_038947066   ⟸   XM_039091138
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947065   ⟸   XM_039091137
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947063   ⟸   XM_039091135
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947064   ⟸   XM_039091136
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947076   ⟸   XM_039091148
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038947072   ⟸   XM_039091144
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038947071   ⟸   XM_039091143
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038947074   ⟸   XM_039091146
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038947068   ⟸   XM_039091140
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947069   ⟸   XM_039091141
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947067   ⟸   XM_039091139
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947073   ⟸   XM_039091145
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038947075   ⟸   XM_039091147
- Peptide Label: isoform X5

Transcriptome

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

Promoters
RGD ID:13698922
Promoter ID:EPDNEW_R9447
Type:initiation region
Name:Sec16b_1
Description:SEC16 homolog B, endoplasmic reticulum export factor
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_6.01375,175,206 - 75,175,266EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621658 AgrOrtholog
Ensembl Genes ENSRNOG00000005229 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000007321 UniProtKB/Swiss-Prot
  ENSRNOP00000046286 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000007321 UniProtKB/Swiss-Prot
  ENSRNOT00000044008 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro ACE1_Sec16_Sec31 UniProtKB/Swiss-Prot
  Sec16 UniProtKB/Swiss-Prot
  Sec16_CCD UniProtKB/Swiss-Prot
KEGG Report rno:89868 UniProtKB/Swiss-Prot
NCBI Gene 89868 ENTREZGENE
PANTHER PTHR13402 UniProtKB/Swiss-Prot
Pfam Sec16 UniProtKB/Swiss-Prot
  Sec16_C UniProtKB/Swiss-Prot
PhenoGen Sec16b PhenoGen
UniProt Q75N33 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q925T1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-30 Sec16b  SEC16 homolog B, endoplasmic reticulum export factor  Sec16b  SEC16 homolog B (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-25 Sec16b  SEC16 homolog B (S. cerevisiae)  Lztr2  leucine zipper transcription regulator 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Lztr2  leucine zipper transcription regulator 2  Rgpr  regucalcin gene promotor region related protein  Symbol and Name updated 1299863 APPROVED
2004-02-26 Rgpr  regucalcin gene promotor region related protein      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Rgpr        Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_homology has greater than 70% identity to human and mouse homologs 633817