Human Gene BICD2 (ENST00000356884.11_11) from GENCODE V47lift37
  Description: BICD cargo adaptor 2, transcript variant 1 (from RefSeq NM_001003800.2)
Gencode Transcript: ENST00000356884.11_11
Gencode Gene: ENSG00000185963.14_13
Transcript (Including UTRs)
   Position: hg19 chr9:95,473,645-95,527,115 Size: 53,471 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr9:95,477,436-95,527,026 Size: 49,591 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviewsModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:95,473,645-95,527,115)mRNA (may differ from genome)Protein (855 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: BICD2_HUMAN
DESCRIPTION: RecName: Full=Protein bicaudal D homolog 2; Short=Bic-D 2;
FUNCTION: May play a role in the dynein-dynactin interactions on the surface of membranous organelles, by associating with these complexes. Regulates coat complex coatomer protein I (COPI)- independent Golgi-endoplasmic reticulum transport by recruiting the dynein-dynactin motor complex (By similarity).
SUBUNIT: Interacts with DCTN2 and RAB6A (By similarity). Interacts with NEK9.
SUBCELLULAR LOCATION: Golgi apparatus. Cytoplasm, cytoskeleton. Note=In interphase cells mainly localizes to the Golgi complex and colocalizes with dynactin at microtubule plus ends (By similarity). Its localization is dependent on microtubule morphology.
TISSUE SPECIFICITY: Ubiquitous.
DOMAIN: The fourth coiled coil region is involved in Golgi targeting and in the interaction with DCTN2 (By similarity).
PTM: Phosphorylated by NEK9 in vitro.
SIMILARITY: Belongs to the BicD family.
SEQUENCE CAUTION: Sequence=BAA31674.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: BICD2
Diseases sorted by gene-association score: spinal muscular atrophy, lower extremity-predominant, 2, ad* (1650), muscular atrophy (18), spinal muscular atrophy (15), proximal spinal muscular atrophy (7), motor neuron disease (2)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 38.93 RPKM in Skin - Not Sun Exposed (Suprapubic)
Total median expression: 502.50 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -46.3089-0.520 Picture PostScript Text
3' UTR -1285.303791-0.339 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR018477 - Bicaudal-D_microtubule-assoc

Pfam Domains:
PF09730 - Microtubule-associated protein Bicaudal-D

ModBase Predicted Comparative 3D Structure on Q8TD16
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0008093 cytoskeletal adaptor activity
GO:0017137 Rab GTPase binding
GO:0034452 dynactin binding
GO:0051959 dynein light intermediate chain binding
GO:0070840 dynein complex binding

Biological Process:
GO:0006890 retrograde vesicle-mediated transport, Golgi to ER
GO:0007018 microtubule-based movement
GO:0015031 protein transport
GO:0034067 protein localization to Golgi apparatus
GO:0051028 mRNA transport
GO:0051642 centrosome localization
GO:0070507 regulation of microtubule cytoskeleton organization
GO:0072385 minus-end-directed organelle transport along microtubule
GO:0072393 microtubule anchoring at microtubule organizing center

Cellular Component:
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005642 annulate lamellae
GO:0005643 nuclear pore
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0005813 centrosome
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0005886 plasma membrane
GO:0031410 cytoplasmic vesicle


-  Descriptions from all associated GenBank mRNAs
  LF209783 - JP 2014500723-A/17286: Polycomb-Associated Non-Coding RNAs.
BC004296 - Homo sapiens bicaudal D homolog 2 (Drosophila), mRNA (cDNA clone IMAGE:3622452), partial cds.
BC073970 - Homo sapiens bicaudal D homolog 2 (Drosophila), mRNA (cDNA clone MGC:88049 IMAGE:6169195), complete cds.
AB014599 - Homo sapiens mRNA for KIAA0699 protein, partial cds.
BC010428 - Homo sapiens bicaudal D homolog 2 (Drosophila), mRNA (cDNA clone IMAGE:3352503), partial cds.
LF331600 - JP 2014500723-A/139103: Polycomb-Associated Non-Coding RNAs.
LF331599 - JP 2014500723-A/139102: Polycomb-Associated Non-Coding RNAs.
LF331598 - JP 2014500723-A/139101: Polycomb-Associated Non-Coding RNAs.
LF331597 - JP 2014500723-A/139100: Polycomb-Associated Non-Coding RNAs.
DQ599435 - Homo sapiens piRNA piR-37501, complete sequence.
LF331596 - JP 2014500723-A/139099: Polycomb-Associated Non-Coding RNAs.
BC012823 - Homo sapiens mRNA similar to ribosomal protein L30 (cDNA clone IMAGE:2961149).
JD467093 - Sequence 448117 from Patent EP1572962.
JD455459 - Sequence 436483 from Patent EP1572962.
AY052562 - Homo sapiens coiled-coil protein BICD2 mRNA, complete cds.
JD343504 - Sequence 324528 from Patent EP1572962.
JD144314 - Sequence 125338 from Patent EP1572962.
JD156959 - Sequence 137983 from Patent EP1572962.
JD209945 - Sequence 190969 from Patent EP1572962.
JD260952 - Sequence 241976 from Patent EP1572962.
LF331595 - JP 2014500723-A/139098: Polycomb-Associated Non-Coding RNAs.
JD416545 - Sequence 397569 from Patent EP1572962.
JD131280 - Sequence 112304 from Patent EP1572962.
KJ893354 - Synthetic construct Homo sapiens clone ccsbBroadEn_02748 BICD2 gene, encodes complete protein.
LF331594 - JP 2014500723-A/139097: Polycomb-Associated Non-Coding RNAs.
LF331593 - JP 2014500723-A/139096: Polycomb-Associated Non-Coding RNAs.
LF331592 - JP 2014500723-A/139095: Polycomb-Associated Non-Coding RNAs.
LF331591 - JP 2014500723-A/139094: Polycomb-Associated Non-Coding RNAs.
JD142520 - Sequence 123544 from Patent EP1572962.
MA567177 - JP 2018138019-A/139103: Polycomb-Associated Non-Coding RNAs.
MA567176 - JP 2018138019-A/139102: Polycomb-Associated Non-Coding RNAs.
MA567175 - JP 2018138019-A/139101: Polycomb-Associated Non-Coding RNAs.
MA567174 - JP 2018138019-A/139100: Polycomb-Associated Non-Coding RNAs.
MA567173 - JP 2018138019-A/139099: Polycomb-Associated Non-Coding RNAs.
MA567172 - JP 2018138019-A/139098: Polycomb-Associated Non-Coding RNAs.
MA567171 - JP 2018138019-A/139097: Polycomb-Associated Non-Coding RNAs.
MA567170 - JP 2018138019-A/139096: Polycomb-Associated Non-Coding RNAs.
MA567169 - JP 2018138019-A/139095: Polycomb-Associated Non-Coding RNAs.
MA567168 - JP 2018138019-A/139094: Polycomb-Associated Non-Coding RNAs.
MA445360 - JP 2018138019-A/17286: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q8TD16 (Reactome details) participates in the following event(s):

R-HSA-8849348 RAB6:GTP and BICD homodimers bind COPI-independent Golgi-to-ER retrograde cargo
R-HSA-8849350 RAB6:GTP displaces PAFAH1B1 from dynein:dynactin complex
R-HSA-6811436 COPI-independent Golgi-to-ER retrograde traffic
R-HSA-8856688 Golgi-to-ER retrograde transport
R-HSA-6811442 Intra-Golgi and retrograde Golgi-to-ER traffic
R-HSA-199991 Membrane Trafficking
R-HSA-5653656 Vesicle-mediated transport

-  Other Names for This Gene
  Alternate Gene Symbols: BICD2 , BICD2_HUMAN, ENST00000356884.1, ENST00000356884.10, ENST00000356884.2, ENST00000356884.3, ENST00000356884.4, ENST00000356884.5, ENST00000356884.6, ENST00000356884.7, ENST00000356884.8, ENST00000356884.9, KIAA0699, NM_001003800, O75181, Q5TBQ2, Q5TBQ3, Q8TD16, Q96LH2, Q9BT84, Q9H561, uc317ztt.1, uc317ztt.2
UCSC ID: ENST00000356884.11_11
RefSeq Accession: NM_001003800.2
Protein: Q8TD16 (aka BICD2_HUMAN or BCD2_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene BICD2:
hsp (Hereditary Spastic Paraplegia Overview)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.