Map1a (microtubule-associated protein 1A) - Rat Genome Database

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Gene: Map1a (microtubule-associated protein 1A) Rattus norvegicus
Analyze
Symbol: Map1a
Name: microtubule-associated protein 1A
RGD ID: 3042
Description: Enables actin binding activity; collagen binding activity; and microtubule binding activity. Involved in negative regulation of microtubule depolymerization. Located in several cellular components, including axon; dendrite; and neuronal cell body. Part of microtubule associated complex. Biomarker of hypothyroidism. Orthologous to human MAP1A (microtubule associated protein 1A); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 2,5-hexanedione.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: MAP-1A; microtubule-associated protein 1 A; Mtap1a
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
mRatBN7.23108,263,217 - 108,283,936 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl3108,263,151 - 108,282,899 (+)Ensembl
Rnor_6.03113,251,918 - 113,272,193 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3113,251,778 - 113,272,186 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03119,791,740 - 119,811,429 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43108,097,119 - 108,111,060 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13107,996,094 - 108,010,036 (+)NCBI
Celera3107,171,142 - 107,185,083 (+)NCBICelera
Cytogenetic Map3q35NCBI
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

References - curated
# Reference Title Reference Citation
1. Effect of hypothyroidism on the expression of three microtubule-associated proteins (1A, 1B and 2) in developing rat cerebellum. Benjamin S, etal., Neuroscience. 1988 Dec;27(3):931-9.
2. Localization of postsynaptic density-93 to dendritic microtubules and interaction with microtubule-associated protein 1A. Brenman JE, etal., J Neurosci. 1998 Nov 1;18(21):8805-13.
3. Microtubule formation and neurite growth in cerebellar macroneurons which develop in vitro: evidence for the involvement of the microtubule-associated proteins, MAP-1a, HMW-MAP2 and Tau. Ferreira A, etal., Brain Res Dev Brain Res. 1989 Oct 1;49(2):215-28.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. MAP2 Defines a Pre-axonal Filtering Zone to Regulate KIF1- versus KIF5-Dependent Cargo Transport in Sensory Neurons. Gumy LF, etal., Neuron. 2017 Apr 19;94(2):347-362.e7. doi: 10.1016/j.neuron.2017.03.046.
7. Microtubule-associated proteins 1A and LC2. Two proteins encoded in one messenger RNA. Langkopf A, etal., J Biol Chem 1992 Aug 15;267(23):16561-6.
8. Exchange protein directly activated by cAMP (EPAC) interacts with the light chain (LC) 2 of MAP1A. Magiera MM, etal., Biochem J. 2004 Sep 15;382(Pt 3):803-10.
9. Molecular characterization of light chain 3. A microtubule binding subunit of MAP1A and MAP1B. Mann SS and Hammarback JA, J Biol Chem 1994 Apr 15;269(15):11492-7.
10. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
11. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. Microtubule-associated protein 1A (MAP1A) and MAP1B: light chains determine distinct functional properties. Noiges R, etal., J Neurosci 2002 Mar 15;22(6):2106-14.
13. Interactions between adaptor protein-1 of the clathrin coat and microtubules via type 1a microtubule-associated proteins. Orzech E, etal., J Biol Chem 2001 Aug 17;276(33):31340-8.
14. Microtubule-associated protein 1a is involved in the early development of the rat spinal cord. Oudega M, etal., Neurosci Lett. 1998 Apr 24;246(2):81-4.
15. Direct interaction between BKCa potassium channel and microtubule-associated protein 1A. Park SM, etal., FEBS Lett. 2004 Jul 16;570(1-3):143-8.
16. The guanylate kinase domain of the MAGUK PSD-95 binds dynamically to a conserved motif in MAP1a. Reese ML, etal., Nat Struct Mol Biol. 2007 Feb;14(2):155-63. Epub 2007 Jan 14.
17. GOA pipeline RGD automated data pipeline
18. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
20. Transcortical alterations in Na(+)-K+ ATPase and microtubule-associated proteins immunoreactivity in the rat cortical atrophy model induced by hypoxic ischemia. Suh JG, etal., Neural Plast 2002;9(3):135-46.
21. Dynamic Palmitoylation Targets MAP6 to the Axon to Promote Microtubule Stabilization during Neuronal Polarization. Tortosa E, etal., Neuron. 2017 May 17;94(4):809-825.e7. doi: 10.1016/j.neuron.2017.04.042.
Additional References at PubMed
PMID:8990203   PMID:11925566   PMID:12480186   PMID:15136571   PMID:16243028   PMID:17114649   PMID:17360631   PMID:17643062   PMID:18971475   PMID:21700703   PMID:22252785   PMID:22323461  
PMID:22779921   PMID:22871113   PMID:24664738   PMID:25788676   PMID:26609151   PMID:29476059   PMID:32357304  


Genomics

Comparative Map Data
Map1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23108,263,217 - 108,283,936 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl3108,263,151 - 108,282,899 (+)Ensembl
Rnor_6.03113,251,918 - 113,272,193 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3113,251,778 - 113,272,186 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03119,791,740 - 119,811,429 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43108,097,119 - 108,111,060 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13107,996,094 - 108,010,036 (+)NCBI
Celera3107,171,142 - 107,185,083 (+)NCBICelera
Cytogenetic Map3q35NCBI
MAP1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381543,510,954 - 43,531,611 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1543,510,958 - 43,531,620 (+)EnsemblGRCh38hg38GRCh38
GRCh371543,809,806 - 43,823,809 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361541,597,098 - 41,611,110 (+)NCBINCBI36hg18NCBI36
Build 341541,597,132 - 41,611,109NCBI
Celera1520,580,478 - 20,594,490 (+)NCBI
Cytogenetic Map15q15.3NCBI
HuRef1520,657,744 - 20,671,755 (+)NCBIHuRef
CHM1_11543,928,513 - 43,942,525 (+)NCBICHM1_1
T2T-CHM13v2.01541,324,959 - 41,338,962 (+)NCBI
Map1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392121,119,608 - 121,141,313 (+)NCBIGRCm39mm39
GRCm39 Ensembl2121,120,081 - 121,141,313 (+)Ensembl
GRCm382121,289,590 - 121,310,832 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2121,289,600 - 121,310,832 (+)EnsemblGRCm38mm10GRCm38
MGSCv372121,115,338 - 121,136,568 (+)NCBIGRCm37mm9NCBIm37
MGSCv362121,115,336 - 121,136,568 (+)NCBImm8
Celera2122,440,757 - 122,461,952 (+)NCBICelera
Cytogenetic Map2E5NCBI
cM Map260.37NCBI
Map1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541610,053,010 - 10,071,421 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541610,052,964 - 10,073,318 (+)NCBIChiLan1.0ChiLan1.0
MAP1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11540,627,099 - 40,647,752 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1540,627,099 - 40,647,752 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01522,472,641 - 22,493,293 (+)NCBIMhudiblu_PPA_v0panPan3
MAP1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13010,361,871 - 10,382,780 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3010,361,909 - 10,381,376 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3010,420,363 - 10,441,256 (+)NCBI
ROS_Cfam_1.03010,498,020 - 10,519,195 (+)NCBI
ROS_Cfam_1.0 Ensembl3010,497,473 - 10,519,193 (+)Ensembl
UMICH_Zoey_3.13010,413,992 - 10,434,829 (+)NCBI
UNSW_CanFamBas_1.03010,535,945 - 10,556,802 (+)NCBI
UU_Cfam_GSD_1.03010,655,574 - 10,676,454 (+)NCBI
Map1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864088,837,633 - 88,858,797 (+)NCBI
SpeTri2.0NW_0049364716,685,565 - 6,706,860 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MAP1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1127,916,644 - 127,936,955 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11127,916,639 - 127,936,952 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21142,763,146 - 142,783,427 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MAP1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12639,469,013 - 39,489,666 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2639,468,222 - 39,489,613 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666048101,524,663 - 101,545,324 (+)NCBIVero_WHO_p1.0
Map1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480410,611,672 - 10,630,881 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462480410,611,657 - 10,632,199 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
MDB0962  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23108,282,689 - 108,282,842 (+)MAPPERmRatBN7.2
Rnor_6.03113,271,420 - 113,271,572NCBIRnor6.0
Rnor_5.03119,811,218 - 119,811,370UniSTSRnor5.0
RGSC_v3.43108,110,851 - 108,111,003UniSTSRGSC3.4
Celera3107,184,874 - 107,185,026UniSTS
Cytogenetic Map3q36UniSTS
AI711500  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23108,282,689 - 108,282,880 (+)MAPPERmRatBN7.2
Rnor_6.03113,271,420 - 113,271,610NCBIRnor6.0
Rnor_5.03119,811,218 - 119,811,408UniSTSRnor5.0
RGSC_v3.43108,110,851 - 108,111,041UniSTSRGSC3.4
Celera3107,184,874 - 107,185,064UniSTS
RH 3.4 Map3948.4UniSTS
Cytogenetic Map3q36UniSTS
BE118757  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23108,278,273 - 108,278,450 (+)MAPPERmRatBN7.2
Rnor_6.03113,267,004 - 113,267,180NCBIRnor6.0
Rnor_5.03119,806,802 - 119,806,978UniSTSRnor5.0
RGSC_v3.43108,106,435 - 108,106,611UniSTSRGSC3.4
Celera3107,180,458 - 107,180,634UniSTS
RH 3.4 Map3948.4UniSTS
Cytogenetic Map3q36UniSTS
stSG627752  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23108,273,238 - 108,274,432 (+)MAPPERmRatBN7.2
Rnor_6.03113,261,969 - 113,263,162NCBIRnor6.0
Rnor_5.03119,801,767 - 119,802,960UniSTSRnor5.0
RGSC_v3.43108,101,400 - 108,102,593UniSTSRGSC3.4
Celera3107,175,423 - 107,176,616UniSTS
Cytogenetic Map3q36UniSTS
ksks17  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23108,272,921 - 108,273,275 (+)MAPPERmRatBN7.2
Rnor_6.03113,261,652 - 113,262,005NCBIRnor6.0
Rnor_5.03119,801,450 - 119,801,803UniSTSRnor5.0
RGSC_v3.43108,101,083 - 108,101,436UniSTSRGSC3.4
Celera3107,175,106 - 107,175,459UniSTS
Cytogenetic Map3q36UniSTS
D15S801  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23108,273,466 - 108,273,578 (+)MAPPERmRatBN7.2
Rnor_6.03113,262,197 - 113,262,308NCBIRnor6.0
Rnor_5.03119,801,995 - 119,802,106UniSTSRnor5.0
RGSC_v3.43108,101,628 - 108,101,739UniSTSRGSC3.4
Celera3107,175,651 - 107,175,762UniSTS
Cytogenetic Map3q36UniSTS
ECD00556  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23108,274,296 - 108,275,190 (+)MAPPERmRatBN7.2
Rnor_6.03113,263,027 - 113,263,920NCBIRnor6.0
Rnor_5.03119,802,825 - 119,803,718UniSTSRnor5.0
RGSC_v3.43108,102,458 - 108,103,351UniSTSRGSC3.4
Celera3107,176,481 - 107,177,374UniSTS
Cytogenetic Map3q36UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)364655305115665732Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)350437504115638231Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)391797474136797474Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)370348525121056321Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)361017749121056321Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)370653097121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)389772419134772419Rat
2302273Gluco35Glucose level QTL 355.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)380800231114297550Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
1581568Rf53Renal function QTL 53total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
1581546Pur13Proteinuria QTL 132.930.0335total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)353184593115665732Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)373376539118376539Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)364655305115665732Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)397084464142084464Rat
1582219Bw63Body weight QTL 633.80.001body mass (VT:0001259)body weight (CMO:0000012)396127817115665732Rat
1582216Bw65Body weight QTL 656.3body mass (VT:0001259)body weight (CMO:0000012)3102200529115665732Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:202
Count of miRNA genes:124
Interacting mature miRNAs:160
Transcripts:ENSRNOT00000019320
Prediction methods: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 32 74 2 21
Low 3 11 21 10 10 10 8 11 26 20 11 8
Below cutoff 36 31 9 31 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000019320   ⟹   ENSRNOP00000019320
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3108,268,958 - 108,282,899 (+)Ensembl
Rnor_6.0 Ensembl3113,257,688 - 113,271,629 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083005   ⟹   ENSRNOP00000073375
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3108,263,151 - 108,282,899 (+)Ensembl
Rnor_6.0 Ensembl3113,251,778 - 113,272,186 (+)Ensembl
RefSeq Acc Id: NM_030995   ⟹   NP_112257
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23108,268,958 - 108,282,901 (+)NCBI
Rnor_6.03113,257,688 - 113,271,629 (+)NCBI
Rnor_5.03119,791,740 - 119,811,429 (+)NCBI
RGSC_v3.43108,097,119 - 108,111,060 (+)RGD
Celera3107,171,142 - 107,185,083 (+)RGD
Sequence:
RefSeq Acc Id: XM_006234826   ⟹   XP_006234888
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23108,263,218 - 108,283,936 (+)NCBI
Rnor_6.03113,251,918 - 113,272,193 (+)NCBI
Rnor_5.03119,791,740 - 119,811,429 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006234828   ⟹   XP_006234890
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23108,269,197 - 108,283,936 (+)NCBI
Rnor_6.03113,257,890 - 113,272,193 (+)NCBI
Rnor_5.03119,791,740 - 119,811,429 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762145   ⟹   XP_008760367
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23108,269,003 - 108,283,936 (+)NCBI
Rnor_6.03113,257,774 - 113,272,193 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039104338   ⟹   XP_038960266
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23108,263,217 - 108,283,936 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_112257   ⟸   NM_030995
- Sequence:
RefSeq Acc Id: XP_006234888   ⟸   XM_006234826
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K5C6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006234890   ⟸   XM_006234828
- Peptide Label: isoform X3
- UniProtKB: G3V7U2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008760367   ⟸   XM_008762145
- Peptide Label: isoform X3
- UniProtKB: G3V7U2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000073375   ⟸   ENSRNOT00000083005
RefSeq Acc Id: ENSRNOP00000019320   ⟸   ENSRNOT00000019320
RefSeq Acc Id: XP_038960266   ⟸   XM_039104338
- Peptide Label: isoform X2

Transcriptome

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

Promoters
RGD ID:13692353
Promoter ID:EPDNEW_R2878
Type:multiple initiation site
Name:Map1a_1
Description:microtubule-associated protein 1A
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_6.03113,257,688 - 113,257,748EPDNEW

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)
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/SsN (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
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)
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
BXH3/CubMcwi (2020)
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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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)
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
F344/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
F344/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
F344/Stm (2019)
Visual CSV TAB Printer
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)
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (2020)
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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (2020)
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
LE/Stm (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
LEW/Crl (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
LEXF10A/StmMcwi (2020)
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
LEXF11/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
M520/NRrrcMcwi (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
MR/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
MWF/Hsd (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
PVG/Seac (2019)
Visual CSV TAB Printer
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)
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
SHRSP/A3NCrl (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
SR/JrHsd (2020)
Visual CSV TAB Printer
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)
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
WAG/RijCrl (2020)
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
WKY/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
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
3 113264850 113264851 C T snv BBDP/Wor (RGD), PVG/Seac (2019), MWF/Hsd (2019), MR/N (2020), GK/FarMcwi (2019), WAG/Rij (RGD), SBH/Ygl (RGD), COP/CrCrl (MCW & UW), SBH/Ygl (MCW), WAG/RijCrl (2020), GK/Ox (RGD), MHS/Gib (RGD), MNS/Gib (RGD)
3 113267232 113267233 C T snv DA/OlaHsd (2019), ACI/N (2020), ACI/EurMcwi (2019), ACI/EurMcwi (RGD), ACI/N (MCW), ACI/EurMcwi (MCW)
3 113269885 113269886 A C snv FHL/EurMcwi (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 119804648 119804649 C T snv ZFDM (KyushuU), RCS/Kyo (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), BDIX/NemOda (KyushuU), HWY/Slc (KyushuU), IS-Tlk/Kyo (KyushuU), COP/CrCrl (MCW & UW), SBH/Ygl (MCW), MHS/Gib (KNAW), WAG/Rij (KNAW), BBDP/WorN (KNAW), GK/Ox (KNAW), MNS/Gib (KNAW), SBH/Ygl (KNAW), IS/Kyo (KyushuU), KFRS3B/Kyo (KyushuU)
3 119805089 119805090 A C snv DOB/Oda (KyushuU)
3 119806909 119806910 G A snv IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU)
3 119807030 119807031 C T snv ACI/EurMcwi (KNAW), ACI/N (KNAW), ZF (KyushuU), DA/BklArbNsi (KNAW), NIG-III/Hok (KyushuU), ACI/EurMcwi (MCW)
3 119808349 119808350 C A snv ZFDM (KyushuU)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 108276120 108276121 C T snv GK/FarMcwi (2019), PVG/Seac (2019), MWF/Hsd (2019), WAG/RijCrl (2020), MR/N (2020)
3 108278502 108278503 C T snv DA/OlaHsd (2019), ACI/N (2020), ACI/EurMcwi (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3042 AgrOrtholog
BioCyc Gene G2FUF-48139 BioCyc
Ensembl Genes ENSRNOG00000014230 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000019320 ENTREZGENE
  ENSRNOP00000019320.1 UniProtKB/TrEMBL
  ENSRNOP00000073375 ENTREZGENE
  ENSRNOP00000073375.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019320 ENTREZGENE
  ENSRNOT00000019320.3 UniProtKB/TrEMBL
  ENSRNOT00000083005 ENTREZGENE
  ENSRNOT00000083005.2 UniProtKB/TrEMBL
InterPro MAP1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAP1A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RibonucZ/Hydroxyglut_hydro UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25152 UniProtKB/Swiss-Prot
NCBI Gene 25152 ENTREZGENE
PANTHER PTHR13843 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR13843:SF6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Map1a PhenoGen
Superfamily-SCOP SSF56281 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K5C6 ENTREZGENE, UniProtKB/TrEMBL
  G3V7U2 ENTREZGENE, UniProtKB/TrEMBL
  MAP1A_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-08-29 Map1a  microtubule-associated protein 1A  Mtap1a  microtubule-associated protein 1 A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Mtap1a  microtubule-associated protein 1 A  Map1a  Microtubule-associated protein 1a  Name updated 625702 APPROVED
2002-06-10 Map1a  Microtubule-associated protein 1a      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_protein translated as a pre-MAP1A/LC2-protein with the structurally related polypeptides, associated light chain LC2 633244