Human Gene SPRING1 (ENST00000261318.5) from GENCODE V44
  Description: Homo sapiens SREBF pathway regulator in golgi 1 (SPRING1), transcript variant 1, mRNA. (from RefSeq NM_024738)
Gencode Transcript: ENST00000261318.5
Gencode Gene: ENSG00000111412.6
Transcript (Including UTRs)
   Position: hg38 chr12:116,710,171-116,738,069 Size: 27,899 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg38 chr12:116,717,810-116,737,900 Size: 20,091 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Methods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:116,710,171-116,738,069)mRNA (may differ from genome)Protein (205 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGencodeGeneCardsHPRD
MalacardsMGIneXtProtPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CL049_HUMAN
DESCRIPTION: RecName: Full=UPF0454 protein C12orf49; Flags: Precursor;
SUBCELLULAR LOCATION: Secreted (Potential).
SIMILARITY: Belongs to the UPF0454 family.

-  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


-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 20.91 RPKM in Thyroid
Total median expression: 261.31 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 -104.90169-0.621 Picture PostScript Text
3' UTR -2733.147639-0.358 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
IPR019352 - UPF0454

Pfam Domains:
PF10218 - Uncharacterized conserved protein (DUF2054)

ModBase Predicted Comparative 3D Structure on Q9H741
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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
Genome BrowserGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsemblEnsembl  
Protein SequenceProtein SequenceProtein SequenceProtein Sequence  
AlignmentAlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Cellular Component:
GO:0005576 extracellular region


-  Descriptions from all associated GenBank mRNAs
  AK074371 - Homo sapiens cDNA FLJ23791 fis, clone HEP21711.
JD060220 - Sequence 41244 from Patent EP1572962.
JD413729 - Sequence 394753 from Patent EP1572962.
JD463087 - Sequence 444111 from Patent EP1572962.
JD337563 - Sequence 318587 from Patent EP1572962.
JD533826 - Sequence 514850 from Patent EP1572962.
JD371268 - Sequence 352292 from Patent EP1572962.
JD514431 - Sequence 495455 from Patent EP1572962.
JD414475 - Sequence 395499 from Patent EP1572962.
JD524694 - Sequence 505718 from Patent EP1572962.
AK025068 - Homo sapiens cDNA: FLJ21415 fis, clone COL04030.
JD448042 - Sequence 429066 from Patent EP1572962.
JD039140 - Sequence 20164 from Patent EP1572962.
JD297172 - Sequence 278196 from Patent EP1572962.
JD183558 - Sequence 164582 from Patent EP1572962.
JD122988 - Sequence 104012 from Patent EP1572962.
JD240110 - Sequence 221134 from Patent EP1572962.
JD137335 - Sequence 118359 from Patent EP1572962.
JD137334 - Sequence 118358 from Patent EP1572962.
JD229271 - Sequence 210295 from Patent EP1572962.
JD091767 - Sequence 72791 from Patent EP1572962.
JD318090 - Sequence 299114 from Patent EP1572962.
JD049058 - Sequence 30082 from Patent EP1572962.
JD157454 - Sequence 138478 from Patent EP1572962.
JD435964 - Sequence 416988 from Patent EP1572962.
JD384382 - Sequence 365406 from Patent EP1572962.
JD427522 - Sequence 408546 from Patent EP1572962.
JD540340 - Sequence 521364 from Patent EP1572962.
AK309652 - Homo sapiens cDNA, FLJ99693.
JD288013 - Sequence 269037 from Patent EP1572962.
JD358282 - Sequence 339306 from Patent EP1572962.
BC019843 - Homo sapiens chromosome 12 open reading frame 49, mRNA (cDNA clone MGC:29833 IMAGE:5112874), complete cds.
JD089889 - Sequence 70913 from Patent EP1572962.
AK222983 - Homo sapiens mRNA for hypothetical protein FLJ21415 variant, clone: HSI04906.
JD207061 - Sequence 188085 from Patent EP1572962.
AK298857 - Homo sapiens cDNA FLJ52021 complete cds.
JD434790 - Sequence 415814 from Patent EP1572962.
JD201710 - Sequence 182734 from Patent EP1572962.
JD187761 - Sequence 168785 from Patent EP1572962.
JD216388 - Sequence 197412 from Patent EP1572962.
JD398959 - Sequence 379983 from Patent EP1572962.
JD191263 - Sequence 172287 from Patent EP1572962.
JD544924 - Sequence 525948 from Patent EP1572962.
JD187435 - Sequence 168459 from Patent EP1572962.
JD535582 - Sequence 516606 from Patent EP1572962.
JD229563 - Sequence 210587 from Patent EP1572962.
JD221805 - Sequence 202829 from Patent EP1572962.
JD220189 - Sequence 201213 from Patent EP1572962.
KJ894733 - Synthetic construct Homo sapiens clone ccsbBroadEn_04127 C12orf49 gene, encodes complete protein.
DQ581320 - Homo sapiens piRNA piR-49432, complete sequence.
DQ599635 - Homo sapiens piRNA piR-37701, complete sequence.
JD271323 - Sequence 252347 from Patent EP1572962.
JD422381 - Sequence 403405 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: C12orf49, CL049_HUMAN, ENST00000261318.1, ENST00000261318.2, ENST00000261318.3, ENST00000261318.4, NM_024738, Q53GE8, Q9H741, uc001tvz.1, uc001tvz.2, uc001tvz.3
UCSC ID: ENST00000261318.5
RefSeq Accession: NM_024738
Protein: Q9H741 (aka CL049_HUMAN)
CCDS: CCDS9179.1

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