Sec24b (SEC24 homolog B, COPII coat complex component) - Rat Genome Database

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Gene: Sec24b (SEC24 homolog B, COPII coat complex component) Rattus norvegicus
Analyze
Symbol: Sec24b
Name: SEC24 homolog B, COPII coat complex component
RGD ID: 1309358
Description: Predicted to enable SNARE binding activity and zinc ion binding activity. Predicted to be involved in COPII-coated vesicle cargo loading. Predicted to act upstream of or within several processes, including artery morphogenesis; lung lobe morphogenesis; and nervous system development. Located in COPII-coated ER to Golgi transport vesicle. Orthologous to human SEC24B (SEC24 homolog B, COPII coat complex component); PARTICIPATES IN Endoplasmic Reticulum-associated degradation pathway; INTERACTS WITH (+)-schisandrin B; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC295461; protein transport protein Sec24B; SEC24 family member B; SEC24 family, member B; SEC24 family, member B (S. cerevisiae); SEC24 related gene family, member B; SEC24 related gene family, member 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: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22218,562,670 - 218,632,753 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2218,562,676 - 218,632,699 (-)Ensembl
Rnor_6.02230,286,886 - 230,356,887 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2230,287,296 - 230,356,919 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02249,637,718 - 249,707,712 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42227,461,119 - 227,531,065 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12227,447,792 - 227,517,590 (-)NCBI
Celera2210,841,947 - 210,911,948 (-)NCBICelera
Cytogenetic Map2q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:10075675   PMID:17499046   PMID:18843296   PMID:19966784   PMID:20215345   PMID:20427317  


Genomics

Comparative Map Data
Sec24b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22218,562,670 - 218,632,753 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2218,562,676 - 218,632,699 (-)Ensembl
Rnor_6.02230,286,886 - 230,356,887 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2230,287,296 - 230,356,919 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02249,637,718 - 249,707,712 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42227,461,119 - 227,531,065 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12227,447,792 - 227,517,590 (-)NCBI
Celera2210,841,947 - 210,911,948 (-)NCBICelera
Cytogenetic Map2q42NCBI
SEC24B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384109,433,815 - 109,540,896 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl4109,433,772 - 109,540,896 (+)EnsemblGRCh38hg38GRCh38
GRCh374110,354,971 - 110,462,052 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364110,574,420 - 110,681,064 (+)NCBINCBI36hg18NCBI36
Build 344110,712,474 - 110,819,215NCBI
Celera4107,677,967 - 107,755,474 (+)NCBI
Cytogenetic Map4q25NCBI
HuRef4106,087,577 - 106,194,359 (+)NCBIHuRef
CHM1_14110,331,615 - 110,438,242 (+)NCBICHM1_1
Sec24b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393129,776,408 - 129,855,248 (-)NCBIGRCm39mm39
GRCm39 Ensembl3129,776,408 - 129,855,202 (-)Ensembl
GRCm383129,982,759 - 130,061,599 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3129,982,759 - 130,061,553 (-)EnsemblGRCm38mm10GRCm38
MGSCv373129,686,103 - 129,763,825 (-)NCBIGRCm37mm9NCBIm37
MGSCv363129,975,207 - 130,052,929 (-)NCBImm8
Celera3136,497,733 - 136,556,236 (-)NCBICelera
Cytogenetic Map3G3NCBI
Sec24b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955496666,404 - 717,862 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955496666,728 - 732,829 (-)NCBIChiLan1.0ChiLan1.0
SEC24B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14112,522,127 - 112,628,065 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4112,534,779 - 112,628,065 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v04101,937,119 - 102,043,038 (+)NCBIMhudiblu_PPA_v0panPan3
SEC24B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13229,671,702 - 29,766,628 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3229,671,738 - 29,772,192 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3212,262,816 - 12,357,346 (-)NCBI
ROS_Cfam_1.03229,891,927 - 29,987,080 (+)NCBI
ROS_Cfam_1.0 Ensembl3229,891,876 - 29,993,825 (+)Ensembl
UMICH_Zoey_3.13229,886,772 - 29,981,286 (+)NCBI
UNSW_CanFamBas_1.03229,631,735 - 29,726,164 (+)NCBI
UU_Cfam_GSD_1.03210,123,890 - 10,218,792 (-)NCBI
Sec24b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530111,178,119 - 11,274,431 (-)NCBI
SpeTri2.0NW_004936563676,564 - 772,877 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEC24B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8112,670,533 - 112,762,858 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18112,670,529 - 112,762,870 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28120,752,183 - 120,853,274 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SEC24B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1757,363,133 - 57,463,056 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl757,387,167 - 57,462,276 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603736,006,296 - 36,107,106 (+)NCBIVero_WHO_p1.0
Sec24b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624830268,764 - 334,660 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH140339  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22218,563,243 - 218,563,384 (+)MAPPERmRatBN7.2
Rnor_6.02230,287,460 - 230,287,600NCBIRnor6.0
Rnor_5.02249,638,287 - 249,638,427UniSTSRnor5.0
RGSC_v3.42227,461,687 - 227,461,827UniSTSRGSC3.4
Celera2210,842,515 - 210,842,655UniSTS
RH 3.4 Map21548.6UniSTS
Cytogenetic Map2q43UniSTS
RH141049  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22218,562,765 - 218,562,985 (+)MAPPERmRatBN7.2
Rnor_6.02230,286,982 - 230,287,201NCBIRnor6.0
Rnor_5.02249,637,809 - 249,638,028UniSTSRnor5.0
RGSC_v3.42227,461,209 - 227,461,428UniSTSRGSC3.4
Celera2210,842,037 - 210,842,256UniSTS
RH 3.4 Map21547.4UniSTS
Cytogenetic Map2q43UniSTS
MARC_20744-20745:1025020999:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22218,568,023 - 218,569,252 (+)MAPPERmRatBN7.2
Rnor_6.02230,292,240 - 230,293,468NCBIRnor6.0
Rnor_5.02249,643,067 - 249,644,295UniSTSRnor5.0
RGSC_v3.42227,466,467 - 227,467,695UniSTSRGSC3.4
Celera2210,847,279 - 210,848,507UniSTS
Cytogenetic Map2q43UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
2300189Bmd48Bone mineral density QTL 485.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)2179335906224335906Rat
61417Cia10Collagen induced arthritis QTL 103.4joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)2179946951224946951Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2182171407227171407Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2182171407227171407Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2182171407227171407Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2182171407227171407Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2184165752229165752Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2185876309219753474Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2185876309219753474Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2189599258226936289Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2189599258234599258Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189599258234599258Rat
2301408Kidm36Kidney mass QTL 360.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2190613715226808892Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
1598813Memor9Memory QTL 92.7exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2199341726234244620Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2200990457245990457Rat
2298479Eau5Experimental allergic uveoretinitis QTL 50.0021uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)2202446871237938339Rat
2299161Iddm33Insulin dependent diabetes mellitus QTL 332.98blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2206312063220876787Rat
631203Gluco14Glucose level QTL 140.0001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)2206665645219003804Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2211744537249053267Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2211744537249053267Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2211744537249053267Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2211744537249053267Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2211744537249053267Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2212828222249053267Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2214226044247136170Rat
2313073Bmd75Bone mineral density QTL 754.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)2215377404237938339Rat
1331767Hrtrt12Heart rate QTL 123.373heart pumping trait (VT:2000009)heart rate (CMO:0000002)2218414747240841241Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:376
Count of miRNA genes:223
Interacting mature miRNAs:261
Transcripts:ENSRNOT00000038509
Prediction methods:Microtar, Miranda
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 3 33 35 20 19 20 2 72 30 41 11
Low 10 22 21 21 8 9 2 5 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000038509   ⟹   ENSRNOP00000037163
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2218,562,676 - 218,632,699 (-)Ensembl
Rnor_6.0 Ensembl2230,287,296 - 230,356,919 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104158   ⟹   ENSRNOP00000093683
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2218,562,676 - 218,632,699 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000109543   ⟹   ENSRNOP00000086925
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2218,562,676 - 218,632,699 (-)Ensembl
RefSeq Acc Id: NM_001106474   ⟹   NP_001099944
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,562,676 - 218,632,699 (-)NCBI
Rnor_6.02230,286,892 - 230,356,834 (-)NCBI
Rnor_5.02249,637,718 - 249,707,712 (-)NCBI
RGSC_v3.42227,461,119 - 227,531,065 (-)RGD
Celera2210,841,947 - 210,911,948 (-)RGD
Sequence:
RefSeq Acc Id: XM_006233275   ⟹   XP_006233337
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,562,670 - 218,632,752 (-)NCBI
Rnor_6.02230,286,886 - 230,356,887 (-)NCBI
Rnor_5.02249,637,718 - 249,707,712 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233276   ⟹   XP_006233338
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,562,670 - 218,632,751 (-)NCBI
Rnor_6.02230,286,886 - 230,356,886 (-)NCBI
Rnor_5.02249,637,718 - 249,707,712 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233277   ⟹   XP_006233339
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,562,670 - 218,632,750 (-)NCBI
Rnor_6.02230,286,886 - 230,356,886 (-)NCBI
Rnor_5.02249,637,718 - 249,707,712 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761458   ⟹   XP_008759680
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,562,670 - 218,632,752 (-)NCBI
Rnor_6.02230,286,886 - 230,356,887 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017590788   ⟹   XP_017446277
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,562,670 - 218,632,752 (-)NCBI
Rnor_6.02230,286,886 - 230,356,887 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039102106   ⟹   XP_038958034
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,562,670 - 218,632,753 (-)NCBI
RefSeq Acc Id: XM_039102107   ⟹   XP_038958035
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,562,670 - 218,632,753 (-)NCBI
RefSeq Acc Id: XM_039102108   ⟹   XP_038958036
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,562,670 - 218,632,752 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001099944   ⟸   NM_001106474
- UniProtKB: D3ZW15 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006233337   ⟸   XM_006233275
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006233338   ⟸   XM_006233276
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006233339   ⟸   XM_006233277
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_008759680   ⟸   XM_008761458
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017446277   ⟸   XM_017590788
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: ENSRNOP00000037163   ⟸   ENSRNOT00000038509
RefSeq Acc Id: XP_038958035   ⟸   XM_039102107
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038958034   ⟸   XM_039102106
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038958036   ⟸   XM_039102108
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000093683   ⟸   ENSRNOT00000104158
RefSeq Acc Id: ENSRNOP00000086925   ⟸   ENSRNOT00000109543
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZW15-F1-model_v2 AlphaFold D3ZW15 1-1242 view protein structure

Transcriptome

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

Promoters
RGD ID:13691738
Promoter ID:EPDNEW_R2263
Type:initiation region
Name:Sec24b_1
Description:SEC24 homolog B, COPII coat complex component
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_6.02230,356,734 - 230,356,794EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 230341998 230341999 C G snv SS/JrHsdMcwi (MCW), FHL/EurMcwi (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 249658947 249658948 C T snv IS-Tlk/Kyo (KyushuU)
2 249692825 249692826 C G snv FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SBH/Ygl (MCW), SBN/Ygl (MCW), SS/JrHsdMcwi (MCW), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 227516229 227516230 C G snv FHH/EurMcwi (MCW), GH/OmrMcwi (MCW), COP/CrCrl (MCW & UW), FHL/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309358 AgrOrtholog
BioCyc Gene G2FUF-51230 BioCyc
Ensembl Genes ENSRNOG00000023373 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000037163 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000086925 ENTREZGENE
  ENSRNOP00000093683 ENTREZGENE
Ensembl Transcript ENSRNOT00000038509 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000104158 ENTREZGENE
  ENSRNOT00000109543 ENTREZGENE
Gene3D-CATH 3.40.20.10 UniProtKB/TrEMBL
  3.40.50.410 UniProtKB/TrEMBL
InterPro ADF-H/Gelsolin-like_dom UniProtKB/TrEMBL
  Gelsolin-like_dom_sf UniProtKB/TrEMBL
  Gelsolin_dom UniProtKB/TrEMBL
  Sec23/24_helical_dom UniProtKB/TrEMBL
  Sec23/24_helical_dom_sf UniProtKB/TrEMBL
  Sec23/24_trunk_dom UniProtKB/TrEMBL
  Sec23_24_beta_S UniProtKB/TrEMBL
  Sec24-like_trunk_dom UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
  Znf_Sec23_Sec24 UniProtKB/TrEMBL
  Znf_Sec23_Sec24_sf UniProtKB/TrEMBL
KEGG Report rno:295461 UniProtKB/TrEMBL
NCBI Gene 295461 ENTREZGENE
Pfam Gelsolin UniProtKB/TrEMBL
  Sec23_BS UniProtKB/TrEMBL
  Sec23_helical UniProtKB/TrEMBL
  Sec23_trunk UniProtKB/TrEMBL
  zf-Sec23_Sec24 UniProtKB/TrEMBL
PhenoGen Sec24b PhenoGen
Superfamily-SCOP Sec23_helical UniProtKB/TrEMBL
  SSF53300 UniProtKB/TrEMBL
  SSF82754 UniProtKB/TrEMBL
  Znf_Sec23_Sec24 UniProtKB/TrEMBL
UniProt D3ZW15 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-13 Sec24b  SEC24 homolog B, COPII coat complex component  Sec24b  SEC24 family member B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-11-11 Sec24b  SEC24 family member B  Sec24b  SEC24 family, member B (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-20 Sec24b  SEC24 family, member B (S. cerevisiae)  Sec24b  SEC24 related gene family, member B (S. cerevisiae)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Sec24b  SEC24 related gene family, member B (S. cerevisiae)   Sec24b_predicted  SEC24 related gene family, member B (S. cerevisiae) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Sec24b_predicted  SEC24 related gene family, member B (S. cerevisiae) (predicted)      Symbol and Name status set to approved 70820 APPROVED