About   Help   FAQ
Malat1 Gene Detail
Summary
  • Symbol
    Malat1
  • Name
    metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)
  • Synonyms
    2210401K01Rik, 9430072K23Rik, NEAT2
  • Feature Type
    lncRNA gene
  • IDs
    MGI:1919539
    NCBI Gene: 72289
  • Alliance
    gene page
  • Transcription Start Sites
    55 TSS
Location &
Maps
more
  • Sequence Map
    Chr19:5845718-5852700 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 19, 4.34 cM
  • Mapping Data
    2 experiments
Strain
Comparison
more
  • SNPs within 2kb
    200 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1919539
 lncRNA gene Chr19:5845717-5852706 (-)
129S1/SvImJ MGP_129S1SvImJ_G0005808
 lincRNA gene Chr19:2797305-2804287 (-)
A/J MGP_AJ_G0005798
 lincRNA gene Chr19:2637778-2644760 (-)
AKR/J MGP_AKRJ_G0005774
 lincRNA gene Chr19:2714504-2721486 (-)
BALB/cJ MGP_BALBcJ_G0005777
 lincRNA gene Chr19:2630656-2637638 (-)
C3H/HeJ MGP_C3HHeJ_G0005725
 lincRNA gene Chr19:2728580-2735562 (-)
C57BL/6NJ MGP_C57BL6NJ_G0005937
 lincRNA gene Chr19:2860306-2867288 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0005280
 lincRNA gene Chr19:2542262-2549261 (-)
CAST/EiJ MGP_CASTEiJ_G0005665
 lincRNA gene Chr19:2742444-2749431 (-)
CBA/J MGP_CBAJ_G0005711
 lincRNA gene Chr19:2997374-3004356 (-)
DBA/2J MGP_DBA2J_G0005730
 lincRNA gene Chr19:2632602-2639584 (-)
FVB/NJ MGP_FVBNJ_G0005757
 lincRNA gene Chr19:2633964-2640946 (-)
LP/J MGP_LPJ_G0005811
 lincRNA gene Chr19:2759254-2766267 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0005743
 lincRNA gene Chr19:2829272-2836254 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0005935
 lincRNA gene Chr19:2731854-2738836 (-)
PWK/PhJ MGP_PWKPhJ_G0005610
 lincRNA gene Chr19:2658187-2665222 (-)
SPRET/EiJ MGP_SPRETEiJ_G0005526
 lincRNA gene Chr19:2722442-2729426 (-)
WSB/EiJ MGP_WSBEiJ_G0005717
 lincRNA gene Chr19:2738756-2745738 (-)



Homology
more
  • Human Ortholog
    MALAT1, metastasis associated lung adenocarcinoma transcript 1
  • Vertebrate Orthologs
    1
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    MALAT1, metastasis associated lung adenocarcinoma transcript 1
  • Synonyms
    HCN, LINC00047, NCRNA00047, NEAT2, PRO2853
  • Links
    NCBI Gene ID: 378938

  • Chr Location
    11q13.1; chr11:65497640-65508073 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    6 phenotypes from 1 allele in 2 genetic backgrounds
    32 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Mice homozygous for a knock-out allele exhibit increased susceptibility to ischemic brain injury with increased cerebral infarction size, worse neurological scores and sensorimotor dysfunction, and increased expression of proapoptotic and proinflammatory factors in brain than wild-type controls.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    11
  • GO References
    10
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
non-membrane-bounded organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    866
  • Tissues
    78
  • cDNA Data
    17
  • Literature Summary
    12
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    • All Sequences
      62
    • RefSeq
      1
    • UniProt
      1
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 72289 NCBI Gene Model | MGI Sequence Detail 6983 C57BL/6J ±  kb
    transcript NR_002847 RefSeq | MGI Sequence Detail 6983 C57BL/6  
    polypeptide B0LAE7 UniProt | EBI | MGI Sequence Detail 10 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      1 Sequence
    Molecular
    Reagents
    less
    • All nucleic 25
      cDNA 17
      Primer pair 3
      Other 5

      Microarray probesets 6
    Other
    Accession IDs
    less
    MGI:1924542, MGI:2147588
    References
    more
    • Summaries
      All 78
      Developmental Gene Expression 12
      Gene Ontology 10
      Phenotypes 32
    • Earliest
      J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
    • Latest
      J:353813 Ben-Crentsil NA, et al., RNA shielding of P65 is required to potentiate oncogenic inflammation in TET2 mutated clonal hematopoiesis. Cancer Discov. 2024 Aug 27;
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
    Citing These Resources
    Funding Information
    Warranty Disclaimer, Privacy Notice, Licensing, & Copyright
    Send questions and comments to User Support.     		last database update
    09/24/2024
    MGI 6.24     		The Jackson Laboratory