Map1lc3a (microtubule-associated protein 1 light chain 3 alpha) - Rat Genome Database

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Gene: Map1lc3a (microtubule-associated protein 1 light chain 3 alpha) Rattus norvegicus
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Symbol: Map1lc3a
Name: microtubule-associated protein 1 light chain 3 alpha
RGD ID: 735183
Description: Predicted to enable microtubule binding activity; phosphatidylethanolamine binding activity; and ubiquitin protein ligase binding activity. Involved in several processes, including cellular response to hydrogen peroxide; cellular response to oxygen-glucose deprivation; and intracellular signaling cassette. Located in autophagosome membrane and late endosome. Is active in glutamatergic synapse. Biomarker of several diseases, including artery disease (multiple); degenerative disc disease; ischemia (multiple); retinal detachment; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in glioblastoma. Orthologous to human MAP1LC3A (microtubule associated protein 1 light chain 3 alpha); PARTICIPATES IN autophagy pathway; INTERACTS WITH 1,3-dichloropropan-2-ol; 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: autophagy-related protein LC3 A; autophagy-related ubiquitin-like modifier LC3 A; LC3-I; LC3-II; LC3A; MAP1 light chain 3-like protein 1; MAP1A/1B light chain 3 A; MAP1A/MAP1B LC3 A; MAP1A/MAP1B light chain 3 A; MGC105263; microtubule-associated proteins 1A/1B light chain 3A
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83164,243,204 - 164,244,850 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3164,243,093 - 164,244,850 (+)EnsemblGRCr8
mRatBN7.23143,783,024 - 143,784,670 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3143,783,024 - 143,784,670 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3147,649,095 - 147,650,741 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03156,266,376 - 156,268,022 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03154,005,913 - 154,007,559 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03150,801,289 - 150,802,935 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3150,801,289 - 150,802,935 (+)Ensemblrn6Rnor6.0
Rnor_5.03157,169,534 - 157,171,180 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43145,758,939 - 145,760,532 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3142,510,304 - 142,511,947 (+)NCBICelera
RGSC_v3.13145,664,573 - 145,666,154 (+)NCBI
Cytogenetic Map3q41NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dichloropropan-2-ol  (EXP)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2-(2-Chlorophenyl-4'-chlorophenyl)-1,1-dichloroethene  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-deoxy-D-glucose  (ISO)
2-hydroxypropanoic acid  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-methyladenine  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-aminopyridine  (EXP)
4-nonylphenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-chloro-7-iodoquinolin-8-ol  (ISO)
abamectin  (EXP)
acadesine  (ISO)
acetamide  (EXP)
acrylamide  (ISO)
acrylonitrile  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (EXP)
Alisol B  (ISO)
allethrin  (EXP)
alpha,alpha-trehalose  (ISO)
amitrole  (ISO)
ammonium chloride  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (EXP)
antirheumatic drug  (ISO)
apilimod  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (EXP,ISO)
bafilomycin A1  (EXP,ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
bortezomib  (EXP)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
cadmium sulfide  (ISO)
calyculin A  (ISO)
cannabidiol  (EXP)
capsaicin  (ISO)
carbamazepine  (EXP)
carbon nanotube  (ISO)
carvacrol  (EXP)
CGP 52608  (ISO)
CHIR 99021  (ISO)
chloroquine  (EXP,ISO)
chlorpyrifos  (ISO)
cisplatin  (EXP,ISO)
clofibrate  (ISO)
clofibric acid  (EXP)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cordycepin  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
cyfluthrin  (EXP,ISO)
cypermethrin  (EXP,ISO)
D-glucose  (EXP)
dactolisib  (ISO)
DDE  (ISO)
desferrioxamine B  (ISO)
diarsenic trioxide  (EXP,ISO)
Dibutyl phosphate  (ISO)
dihydrocapsaicin  (ISO)
Doramectin  (EXP,ISO)
dorsomorphin  (EXP,ISO)
doxorubicin  (EXP,ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
everolimus  (EXP)
fangchinoline  (ISO)
fenofibrate  (ISO)
fenthion  (ISO)
ferric oxide  (ISO)
folic acid  (ISO)
gallic acid  (EXP)
gentamycin  (EXP)
glucose  (EXP)
glyphosate  (ISO)
hesperidin  (EXP)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
Isobavachin  (ISO)
isoprenaline  (EXP)
ivermectin  (ISO)
lead(0)  (ISO)
lidocaine  (EXP)
LY294002  (ISO)
lycopene  (ISO)
melatonin  (ISO)
mercury dichloride  (EXP)
methidathion  (ISO)
Mitoquinone  (ISO)
Monobutylphthalate  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-nitrosodiethylamine  (EXP)
nickel atom  (ISO)
nickel dichloride  (ISO)
Nonylphenol  (EXP)
okadaic acid  (ISO)
ozone  (ISO)
paclitaxel  (EXP)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perfluorooctanoic acid  (EXP,ISO)
perfluoroundecanoic acid  (EXP)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
platycodin D  (ISO)
ponatinib  (ISO)
rac-lactic acid  (ISO)
resorcinol  (ISO)
resveratrol  (ISO)
riboflavin  (EXP)
rotenone  (ISO)
SB 203580  (EXP)
sirolimus  (ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (EXP,ISO)
Soman  (EXP)
streptozocin  (EXP)
sunitinib  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thymol  (ISO)
thymol sulfate(1-)  (ISO)
thymoquinone  (ISO)
titanium dioxide  (ISO)
toluene  (EXP)
triphenyl phosphate  (ISO)
trovafloxacin  (ISO)
uranium atom  (ISO)
valproic acid  (EXP,ISO)
vemurafenib  (ISO)
vinclozolin  (EXP)
vorinostat  (EXP)
XL147  (ISO)
zearalenone  (ISO)
zerumbone  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
autolysosome  (IEA,ISO)
autophagosome  (IDA,IEA,ISO)
autophagosome membrane  (IBA,IDA,IEA,ISO)
cytoplasm  (IDA)
cytoplasmic vesicle  (IEA)
cytoskeleton  (IEA)
cytosol  (IEA,ISO)
endomembrane system  (IEA)
glutamatergic synapse  (IDA,IEP)
late endosome  (IDA)
microtubule  (IEA)
organelle membrane  (IDA,IEA,ISO)
synapse  (EXP,IDA,IEP)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
autophagy pathway  (IEP,ISO)

References

References - curated
# Reference Title Reference Citation
1. Dysregulated Autophagy and Lysosome Function Are Linked to Exosome Production by Micro-RNA 155 in Alcoholic Liver Disease. Babuta M, etal., Hepatology. 2019 Dec;70(6):2123-2141. doi: 10.1002/hep.30766. Epub 2019 Jun 24.
2. Network organization of the human autophagy system. Behrends C, etal., Nature. 2010 Jul 1;466(7302):68-76. Epub 2010 Jun 20.
3. Noggin attenuates cerulein-induced acute pancreatitis and impaired autophagy. Cao Y, etal., Pancreas. 2013 Mar;42(2):301-7. doi: 10.1097/MPA.0b013e31825b9f2c.
4. Trehalose delays the progression of amyotrophic lateral sclerosis by enhancing autophagy in motoneurons. Castillo K, etal., Autophagy. 2013 Sep;9(9):1308-20. doi: 10.4161/auto.25188. Epub 2013 Jun 6.
5. Induction of autophagic cell death in the rat brain caused by iron. Chen G, etal., Am J Med Sci. 2013 May;345(5):369-74. doi: 10.1097/MAJ.0b013e318271c031.
6. Cold ischemia-induced autophagy in rat lung tissue. Chen X, etal., Mol Med Rep. 2015 Apr;11(4):2513-9. doi: 10.3892/mmr.2014.2999. Epub 2014 Nov 26.
7. Propofol prevents autophagic cell death following oxygen and glucose deprivation in PC12 cells and cerebral ischemia-reperfusion injury in rats. Cui D, etal., PLoS One. 2012;7(4):e35324. doi: 10.1371/journal.pone.0035324. Epub 2012 Apr 11.
8. Association of FKBP51 with priming of autophagy pathways and mediation of antidepressant treatment response: evidence in cells, mice, and humans. Gassen NC, etal., PLoS Med. 2014 Nov 11;11(11):e1001755. doi: 10.1371/journal.pmed.1001755. eCollection 2014 Nov.
9. 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.
10. Valproic acid reduces autophagy and promotes functional recovery after spinal cord injury in rats. Hao HH, etal., Neurosci Bull. 2013 Aug;29(4):484-92. doi: 10.1007/s12264-013-1355-6. Epub 2013 Jul 13.
11. Oxidative stress stimulates autophagic flux during ischemia/reperfusion. Hariharan N, etal., Antioxid Redox Signal. 2011 Jun;14(11):2179-90. doi: 10.1089/ars.2010.3488. Epub 2011 Jan 27.
12. Acute spinal cord injury in rats should target activated autophagy. Hou H, etal., J Neurosurg Spine. 2014 May;20(5):568-77. doi: 10.3171/2014.1.SPINE13237. Epub 2014 Feb 21.
13. Autophagy is a renoprotective mechanism during in vitro hypoxia and in vivo ischemia-reperfusion injury. Jiang M, etal., Am J Pathol. 2010 Mar;176(3):1181-92. doi: 10.2353/ajpath.2010.090594. Epub 2010 Jan 14.
14. Angiotensin-(1-7) inhibits autophagy in the brain of spontaneously hypertensive rats. Jiang T, etal., Pharmacol Res. 2013 May;71:61-8. doi: 10.1016/j.phrs.2013.03.001. Epub 2013 Mar 15.
15. LC3, a mammalian homologue of yeast Apg8p, is localized in autophagosome membranes after processing. Kabeya Y, etal., EMBO J. 2000 Nov 1;19(21):5720-8.
16. Axonal protection by Nmnat3 overexpression with involvement of autophagy in optic nerve degeneration. Kitaoka Y, etal., Cell Death Dis. 2013 Oct 17;4:e860. doi: 10.1038/cddis.2013.391.
17. Microtubules facilitate autophagosome formation and fusion of autophagosomes with endosomes. Kochl R, etal., Traffic. 2006 Feb;7(2):129-45.
18. [Changes in expression of autophagy-related proteins, Beclin-1 and LC3, and effects of rapamycin on their expression in hypoxic-ischemic hippocampus]. Li RH, etal., Zhongguo Dang Dai Er Ke Za Zhi. 2015 Apr;17(4):400-4.
19. Tougu Xiaotong capsule inhibits the tidemark replication and cartilage degradation of papain-induced osteoarthritis by the regulation of chondrocyte autophagy. Li X, etal., Int J Mol Med. 2013 Jun;31(6):1349-56. doi: 10.3892/ijmm.2013.1341. Epub 2013 Apr 9.
20. The Effect of Autophagy on Inflammation Cytokines in Renal Ischemia/Reperfusion Injury. Ling H, etal., Inflammation. 2016 Feb;39(1):347-56. doi: 10.1007/s10753-015-0255-5.
21. Itraconazole suppresses the growth of glioblastoma through induction of autophagy: involvement of abnormal cholesterol trafficking. Liu R, etal., Autophagy. 2014 Jul;10(7):1241-55. doi: 10.4161/auto.28912. Epub 2014 May 15.
22. Acute hyperglycemia together with hematoma of high-glucose blood exacerbates neurological injury in a rat model of intracerebral hemorrhage. Liu RY, etal., Neurosci Bull. 2014 Feb;30(1):90-8. doi: 10.1007/s12264-013-1371-6. Epub 2013 Jul 25.
23. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
24. Protective effect of Dl-3n-butylphthalide on learning and memory impairment induced by chronic intermittent hypoxia-hypercapnia exposure. Min JJ, etal., Sci Rep. 2014 Jul 3;4:5555. doi: 10.1038/srep05555.
25. In vitro reconstitution of fusion between immature autophagosomes and endosomes. Morvan J, etal., Autophagy. 2009 Jul;5(5):676-89. Epub 2009 Jul 6.
26. Propofol protects the autophagic cell death induced by the ischemia/reperfusion injury in rats. Noh HS, etal., Mol Cells. 2010 Nov;30(5):455-60. doi: 10.1007/s10059-010-0130-z. Epub 2010 Sep 2.
27. Autophagy, and BiP level decrease are early key events in retrograde degeneration of motoneurons. Penas C, etal., Cell Death Differ. 2011 Oct;18(10):1617-27. doi: 10.1038/cdd.2011.24. Epub 2011 Mar 25.
28. Hyperammonemia-mediated autophagy in skeletal muscle contributes to sarcopenia of cirrhosis. Qiu J, etal., Am J Physiol Endocrinol Metab. 2012 Oct 15;303(8):E983-93. doi: 10.1152/ajpendo.00183.2012. Epub 2012 Aug 14.
29. GOA pipeline RGD automated data pipeline
30. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
31. Caldendrin but not calmodulin binds to light chain 3 of MAP1A/B: an association with the microtubule cytoskeleton highlighting exclusive binding partners for neuronal Ca(2+)-sensor proteins. Seidenbecher CI, etal., J Mol Biol. 2004 Feb 27;336(4):957-70. doi: 10.1016/j.jmb.2003.12.054.
32. TP53INP1, a tumor suppressor, interacts with LC3 and ATG8-family proteins through the LC3-interacting region (LIR) and promotes autophagy-dependent cell death. Seillier M, etal., Cell Death Differ. 2012 Sep;19(9):1525-35. doi: 10.1038/cdd.2012.30. Epub 2012 Mar 16.
33. Hypoxia inducible factor 1alpha contributes to regulation of autophagy in retinal detachment. Shelby SJ, etal., Exp Eye Res. 2015 Aug;137:84-93. doi: 10.1016/j.exer.2015.06.016. Epub 2015 Jun 17.
34. MiR-451 is decreased in hypertrophic cardiomyopathy and regulates autophagy by targeting TSC1. Song L, etal., J Cell Mol Med. 2014 Nov;18(11):2266-74. doi: 10.1111/jcmm.12380. Epub 2014 Sep 11.
35. The effects of BMSCs transplantation on autophagy by CX43 in the hippocampus following traumatic brain injury in rats. Sun L, etal., Neurol Sci. 2014 May;35(5):677-82. doi: 10.1007/s10072-013-1575-6. Epub 2013 Nov 13.
36. Association of membrane rafts and postsynaptic density: proteomics, biochemical, and ultrastructural analyses. Suzuki T, etal., J Neurochem. 2011 Oct;119(1):64-77. doi: 10.1111/j.1471-4159.2011.07404.x. Epub 2011 Aug 22.
37. LC3 conjugation system in mammalian autophagy. Tanida I, etal., Int J Biochem Cell Biol. 2004 Dec;36(12):2503-18.
38. HsAtg4B/HsApg4B/autophagin-1 cleaves the carboxyl termini of three human Atg8 homologues and delipidates microtubule-associated protein light chain 3- and GABAA receptor-associated protein-phospholipid conjugates. Tanida I, etal., J Biol Chem 2004 Aug 27;279(35):36268-76. Epub 2004 Jun 08.
39. Copper compound induces autophagy and apoptosis of glioma cells by reactive oxygen species and JNK activation. Trejo-Solis C, etal., BMC Cancer. 2012 Apr 27;12:156. doi: 10.1186/1471-2407-12-156.
40. Aliskiren ameliorates pressure overload-induced heart hypertrophy and fibrosis in mice. Weng LQ, etal., Acta Pharmacol Sin. 2014 Aug;35(8):1005-14. doi: 10.1038/aps.2014.45. Epub 2014 Jul 7.
41. Autophagy in the heart and liver during normal aging and calorie restriction. Wohlgemuth SE, etal., Rejuvenation Res. 2007 Sep;10(3):281-92.
42. Molecular cloning and characterization of rat LC3A and LC3B--two novel markers of autophagosome. Wu J, etal., Biochem Biophys Res Commun. 2006 Jan 6;339(1):437-42. Epub 2005 Nov 14.
43. Increased expression of DRAM1 confers myocardial protection against ischemia via restoring autophagy flux. Wu X, etal., J Mol Cell Cardiol. 2018 Nov;124:70-82. doi: 10.1016/j.yjmcc.2018.08.018. Epub 2018 Aug 23.
44. Role of autophagy and apoptosis in wound tissue of deep second-degree burn in rats. Xiao M, etal., Acad Emerg Med. 2014 Apr;21(4):383-91. doi: 10.1111/acem.12352.
45. Autophagy and apoptosis in tubular cells following unilateral ureteral obstruction are associated with mitochondrial oxidative stress. Xu Y, etal., Int J Mol Med. 2013 Mar;31(3):628-36. doi: 10.3892/ijmm.2013.1232. Epub 2013 Jan 8.
46. Activin A/Smads signaling pathway negatively regulates Oxygen Glucose Deprivation-induced autophagy via suppression of JNK and p38 MAPK pathways in neuronal PC12 cells. Xue LX, etal., Biochem Biophys Res Commun. 2016 Nov 18;480(3):355-361. doi: 10.1016/j.bbrc.2016.10.050. Epub 2016 Oct 18.
47. Enhanced autophagy plays a cardinal role in mitochondrial dysfunction in type 2 diabetic Goto-Kakizaki (GK) rats: ameliorating effects of (-)-epigallocatechin-3-gallate. Yan J, etal., J Nutr Biochem. 2012 Jul;23(7):716-24. doi: 10.1016/j.jnutbio.2011.03.014. Epub 2011 Aug 4.
48. Increased macroautophagy in the pathological process of intervertebral disc degeneration in rats. Ye W, etal., Connect Tissue Res. 2013;54(1):22-8. doi: 10.3109/03008207.2012.715702. Epub 2012 Aug 23.
49. [Effect of chronic lead exposure on expression of autophagy-associated proteins in rat hippocampus]. Ye WF, etal., Zhejiang Da Xue Xue Bao Yi Xue Ban. 2012 Jul;41(4):402-9.
50. Induction of neuronal mitophagy in acute spinal cord injury in rats. Yu D, etal., Neurotox Res. 2013 Nov;24(4):512-22. doi: 10.1007/s12640-013-9397-0. Epub 2013 Apr 30.
51. Expression of LC3 and Beclin 1 in the spinal dorsal horn following spinal nerve ligation-induced neuropathic pain. Zhang E, etal., Brain Res. 2013 Jun 26;1519:31-9. doi: 10.1016/j.brainres.2013.04.055. Epub 2013 May 8.
52. Myocardial autophagy variation during acute myocardial infarction in rats: the effects of carvedilol. Zhang JL, etal., Chin Med J (Engl). 2009 Oct 5;122(19):2372-9.
53. Enhancement of chondrocyte autophagy is an early response in the degenerative cartilage of the temporomandibular joint to biomechanical dental stimulation. Zhang M, etal., Apoptosis. 2013 Apr;18(4):423-34. doi: 10.1007/s10495-013-0811-0.
54. Morphine induces Beclin 1- and ATG5-dependent autophagy in human neuroblastoma SH-SY5Y cells and in the rat hippocampus. Zhao L, etal., Autophagy. 2010 Apr;6(3):386-94. Epub 2010 Apr 25.
Additional References at PubMed
PMID:7908909   PMID:12477932   PMID:12740394   PMID:15489334   PMID:15755735   PMID:16303767   PMID:19056683   PMID:19366727   PMID:20132792   PMID:20204693   PMID:21220506   PMID:21455601  
PMID:21502359   PMID:21631941   PMID:22005460   PMID:22267086   PMID:22456507   PMID:22496425   PMID:23093945   PMID:24290141   PMID:24713655   PMID:24954904   PMID:25062852   PMID:25127057  
PMID:25327288   PMID:26018745   PMID:26179070   PMID:26237084   PMID:26284810   PMID:27889640   PMID:27994061   PMID:28131823   PMID:28223137   PMID:28578340   PMID:30134829   PMID:31006538  
PMID:33236922   PMID:33673233  


Genomics

Comparative Map Data
Map1lc3a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83164,243,204 - 164,244,850 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3164,243,093 - 164,244,850 (+)EnsemblGRCr8
mRatBN7.23143,783,024 - 143,784,670 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3143,783,024 - 143,784,670 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3147,649,095 - 147,650,741 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03156,266,376 - 156,268,022 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03154,005,913 - 154,007,559 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03150,801,289 - 150,802,935 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3150,801,289 - 150,802,935 (+)Ensemblrn6Rnor6.0
Rnor_5.03157,169,534 - 157,171,180 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43145,758,939 - 145,760,532 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3142,510,304 - 142,511,947 (+)NCBICelera
RGSC_v3.13145,664,573 - 145,666,154 (+)NCBI
Cytogenetic Map3q41NCBI
MAP1LC3A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382034,546,844 - 34,560,345 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2034,546,838 - 34,560,357 (+)Ensemblhg38GRCh38
GRCh372033,134,648 - 33,148,149 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362032,598,353 - 32,611,810 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342032,598,352 - 32,611,810NCBI
Celera2029,883,843 - 29,897,277 (+)NCBICelera
Cytogenetic Map20q11.22NCBI
HuRef2029,915,307 - 29,928,698 (+)NCBIHuRef
CHM1_12033,035,525 - 33,048,963 (+)NCBICHM1_1
T2T-CHM13v2.02036,270,022 - 36,283,500 (+)NCBIT2T-CHM13v2.0
Map1lc3a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392155,118,284 - 155,119,993 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2155,118,217 - 155,119,993 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm382155,276,364 - 155,278,073 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2155,276,297 - 155,278,073 (+)Ensemblmm10GRCm38
MGSCv372155,102,180 - 155,103,809 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv362154,967,905 - 154,969,511 (+)NCBIMGSCv36mm8
Celera2161,209,000 - 161,210,629 (+)NCBICelera
Cytogenetic Map2H1NCBI
cM Map277.18NCBI
Map1lc3a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542226,774,922 - 26,775,884 (-)Ensembl
ChiLan1.0NW_00495542226,774,466 - 26,776,024 (-)NCBIChiLan1.0ChiLan1.0
MAP1LC3A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22140,290,956 - 40,293,402 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12040,284,784 - 40,286,504 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02030,887,345 - 30,888,986 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12032,018,279 - 32,020,411 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2032,010,284 - 32,020,411 (+)EnsemblpanPan2panpan1.1
MAP1LC3A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12423,672,343 - 23,673,937 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2423,633,579 - 23,673,921 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2423,317,942 - 23,319,526 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02424,362,848 - 24,364,432 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2424,323,853 - 24,364,441 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12423,650,207 - 23,651,791 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02423,745,306 - 23,746,891 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02424,184,229 - 24,185,813 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Map1lc3a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640172,643,168 - 172,644,801 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365616,104,742 - 6,106,699 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365616,104,748 - 6,106,348 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MAP1LC3A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1737,957,507 - 37,959,505 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11737,957,830 - 37,959,505 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21743,155,847 - 43,157,522 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MAP1LC3A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1238,857,235 - 38,858,955 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl238,857,299 - 38,858,505 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605087,971,860 - 87,974,126 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Map1lc3a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248424,800,539 - 4,802,094 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248424,800,533 - 4,802,235 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Map1lc3a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v15134,631,977 - 134,633,706 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Map1lc3a
66 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:57
Count of miRNA genes:50
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000035060
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141555229186555229Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3141555229186555229Rat
1582233Insul10Insulin level QTL 105.40.0015blood insulin amount (VT:0001560)serum insulin level times blood glucose level (CMO:0002040)3133259579178259579Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3141555229186555229Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3151075912189428310Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3141555229186555229Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)3129154923182114333Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3141555229186555229Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161492708189428310Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3141555229186555229Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)367641776167835660Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161799493176036425Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3161799270187311134Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3133134628178134628Rat
1582213Insul6Insulin level QTL 63.70.0009blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3141508991166376254Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3152055202189428310Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3142898802187898802Rat
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)379649560177741895Rat
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)3145335553189428310Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3125116475170116475Rat
1582256Insul9Insulin level QTL 94.40.0016blood insulin amount (VT:0001560)absolute change in serum insulin level (CMO:0002038)3155759447189428310Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3139299381184299381Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3141508991177728348Rat
5686842Rf59Renal function QTL 59urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)3122395989167395989Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3137114333182114333Rat
1582248Insul7Insulin level QTL 73.90.0041blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)3131036586176036586Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)3131036586176036586Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)398651826167012663Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3151075912189428310Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3151075912189428310Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3141555229186555229Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3144575244189428310Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)3160357340167835660Rat

Markers in Region
RH128169  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23143,784,414 - 143,784,625 (+)MAPPERmRatBN7.2
Rnor_6.03150,802,680 - 150,802,890NCBIRnor6.0
Rnor_5.03157,170,925 - 157,171,135UniSTSRnor5.0
RGSC_v3.43145,760,277 - 145,760,487UniSTSRGSC3.4
Celera3142,511,692 - 142,511,902UniSTS
Cytogenetic Map3q42UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 163 91 90 59 92 59 6 356 192 11 142 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000035060   ⟹   ENSRNOP00000032429
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3164,243,093 - 164,244,850 (+)Ensembl
mRatBN7.2 Ensembl3143,783,024 - 143,784,670 (+)Ensembl
Rnor_6.0 Ensembl3150,801,289 - 150,802,935 (+)Ensembl
RefSeq Acc Id: NM_199500   ⟹   NP_955794
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83164,243,204 - 164,244,850 (+)NCBI
mRatBN7.23143,783,024 - 143,784,670 (+)NCBI
Rnor_6.03150,801,289 - 150,802,935 (+)NCBI
Rnor_5.03157,169,534 - 157,171,180 (+)NCBI
RGSC_v3.43145,758,939 - 145,760,532 (+)RGD
Celera3142,510,304 - 142,511,947 (+)NCBI
Sequence:
RefSeq Acc Id: NP_955794   ⟸   NM_199500
- UniProtKB: Q6XVN8 (UniProtKB/Swiss-Prot),   A6KI25 (UniProtKB/TrEMBL),   A6KI24 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000032429   ⟸   ENSRNOT00000035060

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6XVN8-F1-model_v2 AlphaFold Q6XVN8 1-121 view protein structure

Transcriptome

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

Promoters
RGD ID:13692581
Promoter ID:EPDNEW_R3106
Type:initiation region
Name:Map1lc3a_1
Description:microtubule-associated protein 1 light chain 3 alpha
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_6.03150,801,311 - 150,801,371EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:735183 AgrOrtholog
BioCyc Gene G2FUF-47145 BioCyc
Ensembl Genes ENSRNOG00000025443 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000035060 ENTREZGENE
  ENSRNOT00000035060.5 UniProtKB/Swiss-Prot
Gene3D-CATH Phosphatidylinositol 3-kinase Catalytic Subunit, Chain A, domain 1 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7302206 IMAGE-MGC_LOAD
InterPro Atg8-like UniProtKB/Swiss-Prot
  Ubiquitin-like_domsf UniProtKB/Swiss-Prot
KEGG Report rno:362245 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105263 IMAGE-MGC_LOAD
NCBI Gene 362245 ENTREZGENE
PANTHER PTHR10969 UniProtKB/Swiss-Prot
Pfam Atg8 UniProtKB/Swiss-Prot
PhenoGen Map1lc3a PhenoGen
RatGTEx ENSRNOG00000025443 RatGTEx
Superfamily-SCOP SSF54236 UniProtKB/Swiss-Prot
UniProt A6KI24 ENTREZGENE, UniProtKB/TrEMBL
  A6KI25 ENTREZGENE, UniProtKB/TrEMBL
  A6KI27_RAT UniProtKB/TrEMBL
  A6KI29_RAT UniProtKB/TrEMBL
  MLP3A_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Map1lc3a  microtubule-associated protein 1 light chain 3 alpha      Symbol and Name status set to approved 1299863 APPROVED