Human Gene KRBA1 (ENST00000319551.12_2) from GENCODE V47lift37
  Description: KRAB-A domain containing 1, transcript variant 1 (from RefSeq NM_032534.4)
Gencode Transcript: ENST00000319551.12_2
Gencode Gene: ENSG00000133619.18_13
Transcript (Including UTRs)
   Position: hg19 chr7:149,412,148-149,431,664 Size: 19,517 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr7:149,416,730-149,431,136 Size: 14,407 Coding Exon Count: 17 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:149,412,148-149,431,664)mRNA (may differ from genome)Protein (1026 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: KRBA1_HUMAN
DESCRIPTION: RecName: Full=Protein KRBA1;
TISSUE SPECIFICITY: Expressed in brain (cerebellum).
SEQUENCE CAUTION: Sequence=BAB47491.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  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


-  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: 13.81 RPKM in Pituitary
Total median expression: 205.97 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -187.20399-0.469 Picture PostScript Text
3' UTR -196.90528-0.373 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
  Pfam Domains:
PF15287 - KRBA1 family repeat

ModBase Predicted Comparative 3D Structure on A5PL33
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    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function

Biological Process:
GO:0008150 biological_process

Cellular Component:
GO:0005575 cellular_component


-  Descriptions from all associated GenBank mRNAs
  BC142722 - Homo sapiens KRAB-A domain containing 1, mRNA (cDNA clone MGC:165081 IMAGE:40148879), complete cds.
BC146667 - Homo sapiens KRAB-A domain containing 1, mRNA (cDNA clone MGC:164921 IMAGE:40148146), complete cds.
AB058765 - Homo sapiens KIAA1862 mRNA for KIAA1862 protein.
BC150330 - Homo sapiens KRAB-A domain containing 1, mRNA (cDNA clone MGC:167818 IMAGE:8860497), complete cds.
BC152409 - Homo sapiens KRAB-A domain containing 1, mRNA (cDNA clone MGC:176633 IMAGE:8862512), complete cds.
AB384311 - Synthetic construct DNA, clone: pF1KSDA1862, Homo sapiens KRBA1 gene for KRAB-A domain-containing protein 1, complete cds, without stop codon, in Flexi system.
KJ903441 - Synthetic construct Homo sapiens clone ccsbBroadEn_12835 KRBA1 gene, encodes complete protein.
AL831935 - Homo sapiens mRNA; cDNA DKFZp547N2415 (from clone DKFZp547N2415).
BC033229 - Homo sapiens KRAB-A domain containing 1, mRNA (cDNA clone IMAGE:5091450), partial cds.
BC041587 - Homo sapiens KRAB-A domain containing 1, mRNA (cDNA clone IMAGE:4908554), partial cds.
JD289311 - Sequence 270335 from Patent EP1572962.
JD408258 - Sequence 389282 from Patent EP1572962.
JD482203 - Sequence 463227 from Patent EP1572962.
JD453043 - Sequence 434067 from Patent EP1572962.
JD288119 - Sequence 269143 from Patent EP1572962.
JD078679 - Sequence 59703 from Patent EP1572962.
JD099908 - Sequence 80932 from Patent EP1572962.
JD230656 - Sequence 211680 from Patent EP1572962.
JD537002 - Sequence 518026 from Patent EP1572962.
JD340599 - Sequence 321623 from Patent EP1572962.
JD542142 - Sequence 523166 from Patent EP1572962.
JD158111 - Sequence 139135 from Patent EP1572962.
JD387413 - Sequence 368437 from Patent EP1572962.
JD547278 - Sequence 528302 from Patent EP1572962.
JD465817 - Sequence 446841 from Patent EP1572962.
JD523691 - Sequence 504715 from Patent EP1572962.
JD389630 - Sequence 370654 from Patent EP1572962.
JD255027 - Sequence 236051 from Patent EP1572962.
JD443436 - Sequence 424460 from Patent EP1572962.
JD518326 - Sequence 499350 from Patent EP1572962.
JD261488 - Sequence 242512 from Patent EP1572962.
JD423715 - Sequence 404739 from Patent EP1572962.
JD196506 - Sequence 177530 from Patent EP1572962.
JD392094 - Sequence 373118 from Patent EP1572962.
JD123997 - Sequence 105021 from Patent EP1572962.
JD467390 - Sequence 448414 from Patent EP1572962.
JD521309 - Sequence 502333 from Patent EP1572962.
JD414378 - Sequence 395402 from Patent EP1572962.
JD514208 - Sequence 495232 from Patent EP1572962.
JD110479 - Sequence 91503 from Patent EP1572962.
JD190545 - Sequence 171569 from Patent EP1572962.
JD430633 - Sequence 411657 from Patent EP1572962.
JD350465 - Sequence 331489 from Patent EP1572962.
JD098152 - Sequence 79176 from Patent EP1572962.
JD258102 - Sequence 239126 from Patent EP1572962.

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

Protein A5PL33 (Reactome details) participates in the following event(s):

R-HSA-975040 KRAB-ZNF / KAP Interaction
R-HSA-212436 Generic Transcription Pathway
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: A5PL33, A7E2F5, E7ENE9, ENST00000319551.1, ENST00000319551.10, ENST00000319551.11, ENST00000319551.2, ENST00000319551.3, ENST00000319551.4, ENST00000319551.5, ENST00000319551.6, ENST00000319551.7, ENST00000319551.8, ENST00000319551.9, KIAA1862, KRBA1_HUMAN, NM_032534, Q8N4X0, Q96JG5, uc317qrt.1, uc317qrt.2
UCSC ID: ENST00000319551.12_2
RefSeq Accession: NM_032534.4
Protein: A5PL33 (aka KRBA1_HUMAN)

-  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.