Human Gene LARP7 (ENST00000344442.10_10) from GENCODE V47lift37
  Description: La ribonucleoprotein 7, transcriptional regulator, transcript variant 1 (from RefSeq NM_016648.4)
Gencode Transcript: ENST00000344442.10_10
Gencode Gene: ENSG00000174720.18_17
Transcript (Including UTRs)
   Position: hg19 chr4:113,558,299-113,578,742 Size: 20,444 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr4:113,565,826-113,578,483 Size: 12,658 Coding Exon Count: 12 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:113,558,299-113,578,742)mRNA (may differ from genome)Protein (582 aa)
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BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LARP7_HUMAN
DESCRIPTION: RecName: Full=La-related protein 7; AltName: Full=La ribonucleoprotein domain family member 7; AltName: Full=P-TEFb-interaction protein for 7SK stability; Short=PIP7S;
FUNCTION: Negative transcriptional regulator of polymerase II genes, acting by means of the 7SK RNP system. Within the 7SK RNP complex, the positive transcription elongation factor b (P-TEFb) is sequestered in an inactive form, preventing RNA polymerase II phosphorylation and subsequent transcriptional elongation.
SUBUNIT: Integral part of the 7SK RNP complex. Specifically binds to the highly conserved 3'-terminal U-rich stretch of 7SK RNA. On stimulation, remains associated with 7SK RNA, whereas P-TEFb is released from the complex.
SUBCELLULAR LOCATION: Nucleus, nucleoplasm.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR (By similarity).
SIMILARITY: Contains 1 HTH La-type RNA-binding domain.
SIMILARITY: Contains 1 RRM (RNA recognition motif) domain.
SEQUENCE CAUTION: Sequence=ACD13786.1; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=EAX06284.1; 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


-  MalaCards Disease Associations
  MalaCards Gene Search: LARP7
Diseases sorted by gene-association score: alazami syndrome* (1378), bowen-conradi syndrome (12), med23 (10), pitt-hopkins syndrome (6), growth hormone deficiency, isolated, type ia (5), intellectual disability (2)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  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: 25.72 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 716.80 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 -21.2099-0.214 Picture PostScript Text
3' UTR -40.50259-0.156 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
IPR002344 - Lupus_La
IPR006630 - Lupus_La_RNA-bd
IPR012677 - Nucleotide-bd_a/b_plait
IPR014886 - RRM_3
IPR000504 - RRM_dom
IPR011991 - WHTH_trsnscrt_rep_DNA-bd

Pfam Domains:
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF05383 - La domain
PF08777 - RNA binding motif

SCOP Domains:
46785 - "Winged helix" DNA-binding domain
54928 - RNA-binding domain, RBD

ModBase Predicted Comparative 3D Structure on Q4G0J3
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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0005515 protein binding

Biological Process:
GO:0006396 RNA processing

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol
GO:1990904 ribonucleoprotein complex


-  Descriptions from all associated GenBank mRNAs
  BC066945 - Homo sapiens La ribonucleoprotein domain family, member 7, mRNA (cDNA clone MGC:87333 IMAGE:4837780), complete cds.
BX647100 - Homo sapiens mRNA; cDNA DKFZp686M06158 (from clone DKFZp686M06158).
AK000274 - Homo sapiens cDNA FLJ20267 fis, clone HEP00925, highly similar to AL049996 Homo sapiens mRNA; cDNA DKFZp564K112.
BC006981 - Homo sapiens La ribonucleoprotein domain family, member 7, mRNA (cDNA clone IMAGE:3960576), complete cds.
EU667388 - Homo sapiens La-related protein 7 mRNA, complete cds.
KJ898930 - Synthetic construct Homo sapiens clone ccsbBroadEn_08324 LARP7 gene, encodes complete protein.
AF068284 - Homo sapiens HDCMA18P mRNA, complete cds.
AK225900 - Homo sapiens mRNA for hypothetical protein LOC51574 variant, clone: FCC120D11.
LF355732 - JP 2014500723-A/163235: Polycomb-Associated Non-Coding RNAs.
JD498967 - Sequence 479991 from Patent EP1572962.
JD091678 - Sequence 72702 from Patent EP1572962.
JD039284 - Sequence 20308 from Patent EP1572962.
JD115513 - Sequence 96537 from Patent EP1572962.
JD451376 - Sequence 432400 from Patent EP1572962.
JD380438 - Sequence 361462 from Patent EP1572962.
AK000089 - Homo sapiens cDNA FLJ20082 fis, clone COL03245.
LF355731 - JP 2014500723-A/163234: Polycomb-Associated Non-Coding RNAs.
LF355730 - JP 2014500723-A/163233: Polycomb-Associated Non-Coding RNAs.
LF355729 - JP 2014500723-A/163232: Polycomb-Associated Non-Coding RNAs.
AL049996 - Homo sapiens mRNA; cDNA DKFZp564K112 (from clone DKFZp564K112).
BC107709 - Homo sapiens La ribonucleoprotein domain family, member 7, mRNA (cDNA clone IMAGE:6621706), partial cds.
JD059119 - Sequence 40143 from Patent EP1572962.
JD182125 - Sequence 163149 from Patent EP1572962.
LF355728 - JP 2014500723-A/163231: Polycomb-Associated Non-Coding RNAs.
MA591309 - JP 2018138019-A/163235: Polycomb-Associated Non-Coding RNAs.
MA591308 - JP 2018138019-A/163234: Polycomb-Associated Non-Coding RNAs.
MA591307 - JP 2018138019-A/163233: Polycomb-Associated Non-Coding RNAs.
MA591306 - JP 2018138019-A/163232: Polycomb-Associated Non-Coding RNAs.
MA591305 - JP 2018138019-A/163231: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B2ZHN6, ENST00000344442.1, ENST00000344442.2, ENST00000344442.3, ENST00000344442.4, ENST00000344442.5, ENST00000344442.6, ENST00000344442.7, ENST00000344442.8, ENST00000344442.9, HDCMA18P , LARP7 , LARP7_HUMAN, NM_016648, Q3B7A9, Q4G0J3, Q9P1S7, Q9Y3Z8, uc317wyk.1, uc317wyk.2
UCSC ID: ENST00000344442.10_10
RefSeq Accession: NM_016648.4
Protein: Q4G0J3 (aka LARP7_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.