Human Gene ATRN (ENST00000262919.10_8) from GENCODE V47lift37
  Description: attractin, transcript variant 1 (from RefSeq NM_139321.3)
Gencode Transcript: ENST00000262919.10_8
Gencode Gene: ENSG00000088812.18_12
Transcript (Including UTRs)
   Position: hg19 chr20:3,451,665-3,631,765 Size: 180,101 Total Exon Count: 29 Strand: +
Coding Region
   Position: hg19 chr20:3,451,755-3,627,494 Size: 175,740 Coding Exon Count: 29 

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 (chr20:3,451,665-3,631,765)mRNA (may differ from genome)Protein (1429 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ATRN_HUMAN
DESCRIPTION: RecName: Full=Attractin; AltName: Full=DPPT-L; AltName: Full=Mahogany homolog; Flags: Precursor;
FUNCTION: Involved in the initial immune cell clustering during inflammatory response and may regulate chemotactic activity of chemokines. May play a role in melanocortin signaling pathways that regulate energy homeostasis and hair color. Low-affinity receptor for agouti (By similarity). Has a critical role in normal myelination in the central nervous system (By similarity).
SUBUNIT: Monomer and homotrimer.
SUBCELLULAR LOCATION: Isoform 1: Cell membrane; Single-pass type I membrane protein.
SUBCELLULAR LOCATION: Isoform 2: Secreted.
SUBCELLULAR LOCATION: Isoform 3: Secreted.
TISSUE SPECIFICITY: Isoform 2 is detected in plasma (at protein level). Expressed and secreted by activated T-lymphocytes. Expressed at low to moderate levels in peripheral blood leukocytes, spleen, lymph node, tonsil, bone marrow and fetal liver. At very low levels found in thymus. Isoform 2 is the major isoform in peripheral blood leukocytes.
INDUCTION: Activation of peripheral blood leukocytes with phytohemagglutinin induces strong expression of the membrane isoform followed by the release of the secreted isoform.
PTM: Heavily glycosylated.
SIMILARITY: Contains 1 C-type lectin domain.
SIMILARITY: Contains 1 CUB domain.
SIMILARITY: Contains 1 EGF-like domain.
SIMILARITY: Contains 6 Kelch repeats.
SIMILARITY: Contains 2 laminin EGF-like domains.
SIMILARITY: Contains 4 PSI domains.
CAUTION: Was originally (PubMed:7539799 and PubMed:9736737) thought to have dipeptidase activity but it was shown later to lack that activity (PubMed:17261078).
WEB RESOURCE: Name=Functional Glycomics Gateway - Glycan Binding; Note=Attractin-2; URL="http://www.functionalglycomics.org/glycomics/GBPServlet?&operationType=view&cbpId=cbp_hum_Ctlect_206";

-  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: ATRN
Diseases sorted by gene-association score: shwartzman phenomenon (9), kidney cortex necrosis (6), 3-methylglutaconic aciduria, type iv (4), obesity (2), left ventricular noncompaction (1)

-  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: 14.18 RPKM in Adrenal Gland
Total median expression: 383.24 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 -51.3090-0.570 Picture PostScript Text
3' UTR -1291.004271-0.302 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
IPR001304 - C-type_lectin
IPR016186 - C-type_lectin-like
IPR016187 - C-type_lectin_fold
IPR000859 - CUB
IPR000742 - EG-like_dom
IPR013032 - EGF-like_CS
IPR002049 - EGF_laminin
IPR015915 - Kelch-typ_b-propeller
IPR006652 - Kelch_1
IPR003659 - Plexin-like
IPR002165 - Plexin_repeat

Pfam Domains:
PF00053 - Laminin EGF domain
PF00059 - Lectin C-type domain
PF00431 - CUB domain
PF01344 - Kelch motif
PF01437 - Plexin repeat
PF13854 - Kelch motif
PF13964 - Kelch motif

SCOP Domains:
49854 - Spermadhesin, CUB domain
117281 - Kelch motif
63825 - YWTD domain
69304 - Tricorn protease N-terminal domain
89372 - Fucose-specific lectin
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
50998 - Quinoprotein alcohol dehydrogenase-like
82171 - DPP6 N-terminal domain-like
56436 - C-type lectin-like
57196 - EGF/Laminin

ModBase Predicted Comparative 3D Structure on O75882
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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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0030246 carbohydrate binding
GO:0038023 signaling receptor activity

Biological Process:
GO:0006954 inflammatory response
GO:0006979 response to oxidative stress
GO:0007165 signal transduction
GO:0021549 cerebellum development
GO:0040014 regulation of multicellular organism growth
GO:0042552 myelination
GO:0043473 pigmentation

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AK293010 - Homo sapiens cDNA FLJ78769 complete cds, highly similar to Homo sapiens attractin (ATRN), transcript variant 2, mRNA.
LF383738 - JP 2014500723-A/191241: Polycomb-Associated Non-Coding RNAs.
AK302730 - Homo sapiens cDNA FLJ58441 complete cds, highly similar to Attractin precursor.
BC101705 - Homo sapiens attractin, mRNA (cDNA clone MGC:126754 IMAGE:8069211), complete cds.
AF106861 - Homo sapiens attractin-2 (ATRN) mRNA, complete cds.
MA619315 - JP 2018138019-A/191241: Polycomb-Associated Non-Coding RNAs.
LF349576 - JP 2014500723-A/157079: Polycomb-Associated Non-Coding RNAs.
LF349577 - JP 2014500723-A/157080: Polycomb-Associated Non-Coding RNAs.
LF349578 - JP 2014500723-A/157081: Polycomb-Associated Non-Coding RNAs.
MA585153 - JP 2018138019-A/157079: Polycomb-Associated Non-Coding RNAs.
MA585154 - JP 2018138019-A/157080: Polycomb-Associated Non-Coding RNAs.
MA585155 - JP 2018138019-A/157081: Polycomb-Associated Non-Coding RNAs.
LF349580 - JP 2014500723-A/157083: Polycomb-Associated Non-Coding RNAs.
LF349583 - JP 2014500723-A/157086: Polycomb-Associated Non-Coding RNAs.
LF349584 - JP 2014500723-A/157087: Polycomb-Associated Non-Coding RNAs.
AK000356 - Homo sapiens cDNA FLJ20349 fis, clone HEP13957, highly similar to AB011120 Homo sapiens mRNA for KIAA0548 protein.
AB011120 - Homo sapiens mRNA for KIAA0548 protein, partial cds.
JD021364 - Sequence 2388 from Patent EP1572962.
JD021983 - Sequence 3007 from Patent EP1572962.
JD036329 - Sequence 17353 from Patent EP1572962.
LF349587 - JP 2014500723-A/157090: Polycomb-Associated Non-Coding RNAs.
LF205909 - JP 2014500723-A/13412: Polycomb-Associated Non-Coding RNAs.
JD098336 - Sequence 79360 from Patent EP1572962.
LF349589 - JP 2014500723-A/157092: Polycomb-Associated Non-Coding RNAs.
JD173682 - Sequence 154706 from Patent EP1572962.
JD233573 - Sequence 214597 from Patent EP1572962.
JD384118 - Sequence 365142 from Patent EP1572962.
JD207081 - Sequence 188105 from Patent EP1572962.
LF349590 - JP 2014500723-A/157093: Polycomb-Associated Non-Coding RNAs.
JD272753 - Sequence 253777 from Patent EP1572962.
JD507439 - Sequence 488463 from Patent EP1572962.
JD241505 - Sequence 222529 from Patent EP1572962.
JD037545 - Sequence 18569 from Patent EP1572962.
JD037376 - Sequence 18400 from Patent EP1572962.
JD259858 - Sequence 240882 from Patent EP1572962.
JD167070 - Sequence 148094 from Patent EP1572962.
JD136498 - Sequence 117522 from Patent EP1572962.
JD151429 - Sequence 132453 from Patent EP1572962.
LF349591 - JP 2014500723-A/157094: Polycomb-Associated Non-Coding RNAs.
JD418139 - Sequence 399163 from Patent EP1572962.
JD110135 - Sequence 91159 from Patent EP1572962.
JD237593 - Sequence 218617 from Patent EP1572962.
JD332518 - Sequence 313542 from Patent EP1572962.
LF349592 - JP 2014500723-A/157095: Polycomb-Associated Non-Coding RNAs.
JD202882 - Sequence 183906 from Patent EP1572962.
JD102400 - Sequence 83424 from Patent EP1572962.
JD556084 - Sequence 537108 from Patent EP1572962.
JD531977 - Sequence 513001 from Patent EP1572962.
JD398544 - Sequence 379568 from Patent EP1572962.
JD279567 - Sequence 260591 from Patent EP1572962.
JD489446 - Sequence 470470 from Patent EP1572962.
JD544586 - Sequence 525610 from Patent EP1572962.
JD124566 - Sequence 105590 from Patent EP1572962.
JD485055 - Sequence 466079 from Patent EP1572962.
JD151610 - Sequence 132634 from Patent EP1572962.
JD137700 - Sequence 118724 from Patent EP1572962.
JD472862 - Sequence 453886 from Patent EP1572962.
JD203142 - Sequence 184166 from Patent EP1572962.
JD105101 - Sequence 86125 from Patent EP1572962.
JD305296 - Sequence 286320 from Patent EP1572962.
JD353855 - Sequence 334879 from Patent EP1572962.
JD528793 - Sequence 509817 from Patent EP1572962.
JD122670 - Sequence 103694 from Patent EP1572962.
LF349593 - JP 2014500723-A/157096: Polycomb-Associated Non-Coding RNAs.
JD426491 - Sequence 407515 from Patent EP1572962.
JD227078 - Sequence 208102 from Patent EP1572962.
JD245495 - Sequence 226519 from Patent EP1572962.
JD562500 - Sequence 543524 from Patent EP1572962.
JD551458 - Sequence 532482 from Patent EP1572962.
JD372325 - Sequence 353349 from Patent EP1572962.
JD091132 - Sequence 72156 from Patent EP1572962.
JD039774 - Sequence 20798 from Patent EP1572962.
JD224277 - Sequence 205301 from Patent EP1572962.
JD465951 - Sequence 446975 from Patent EP1572962.
JD085645 - Sequence 66669 from Patent EP1572962.
JD122925 - Sequence 103949 from Patent EP1572962.
JD351426 - Sequence 332450 from Patent EP1572962.
JD262292 - Sequence 243316 from Patent EP1572962.
JD320089 - Sequence 301113 from Patent EP1572962.
JD080602 - Sequence 61626 from Patent EP1572962.
JD301934 - Sequence 282958 from Patent EP1572962.
JD055799 - Sequence 36823 from Patent EP1572962.
JD136981 - Sequence 118005 from Patent EP1572962.
JD150969 - Sequence 131993 from Patent EP1572962.
JD255093 - Sequence 236117 from Patent EP1572962.
JD134943 - Sequence 115967 from Patent EP1572962.
JD157039 - Sequence 138063 from Patent EP1572962.
JD270050 - Sequence 251074 from Patent EP1572962.
JD253634 - Sequence 234658 from Patent EP1572962.
JD337093 - Sequence 318117 from Patent EP1572962.
LF349594 - JP 2014500723-A/157097: Polycomb-Associated Non-Coding RNAs.
JD357465 - Sequence 338489 from Patent EP1572962.
DQ598702 - Homo sapiens piRNA piR-36768, complete sequence.
BC009724 - Homo sapiens, clone IMAGE:3896436, mRNA, partial cds.
JD474146 - Sequence 455170 from Patent EP1572962.
JD299414 - Sequence 280438 from Patent EP1572962.
JD297328 - Sequence 278352 from Patent EP1572962.
JD238821 - Sequence 219845 from Patent EP1572962.
JD362601 - Sequence 343625 from Patent EP1572962.
JD339681 - Sequence 320705 from Patent EP1572962.
JD172359 - Sequence 153383 from Patent EP1572962.
JD455979 - Sequence 437003 from Patent EP1572962.
JD398938 - Sequence 379962 from Patent EP1572962.
JD438796 - Sequence 419820 from Patent EP1572962.
JD267811 - Sequence 248835 from Patent EP1572962.
JD313845 - Sequence 294869 from Patent EP1572962.
JD408786 - Sequence 389810 from Patent EP1572962.
JD061948 - Sequence 42972 from Patent EP1572962.
JD299155 - Sequence 280179 from Patent EP1572962.
LF349595 - JP 2014500723-A/157098: Polycomb-Associated Non-Coding RNAs.
MA585157 - JP 2018138019-A/157083: Polycomb-Associated Non-Coding RNAs.
MA585160 - JP 2018138019-A/157086: Polycomb-Associated Non-Coding RNAs.
MA585161 - JP 2018138019-A/157087: Polycomb-Associated Non-Coding RNAs.
MA585164 - JP 2018138019-A/157090: Polycomb-Associated Non-Coding RNAs.
MA585166 - JP 2018138019-A/157092: Polycomb-Associated Non-Coding RNAs.
MA585167 - JP 2018138019-A/157093: Polycomb-Associated Non-Coding RNAs.
MA585168 - JP 2018138019-A/157094: Polycomb-Associated Non-Coding RNAs.
MA585169 - JP 2018138019-A/157095: Polycomb-Associated Non-Coding RNAs.
MA585170 - JP 2018138019-A/157096: Polycomb-Associated Non-Coding RNAs.
MA585171 - JP 2018138019-A/157097: Polycomb-Associated Non-Coding RNAs.
MA585172 - JP 2018138019-A/157098: Polycomb-Associated Non-Coding RNAs.
MA441486 - JP 2018138019-A/13412: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A8KAE5, ATRN_HUMAN, ENST00000262919.1, ENST00000262919.2, ENST00000262919.3, ENST00000262919.4, ENST00000262919.5, ENST00000262919.6, ENST00000262919.7, ENST00000262919.8, ENST00000262919.9, KIAA0548, MGCA, NM_139321, O60295, O75882, O95414, Q3MIT3, Q5TDA2, Q5TDA4, Q5VYW3, Q9NTQ3, Q9NTQ4, Q9NU01, Q9NZ57, Q9NZ58, Q9UC75, Q9UDF5, uc317heq.1, uc317heq.2
UCSC ID: ENST00000262919.10_8
RefSeq Accession: NM_139321.3
Protein: O75882 (aka ATRN_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.