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TSPAN9 tetraspanin 9 [ Homo sapiens (human) ]

Gene ID: 10867, updated on 17-Jun-2024

Summary

Official Symbol
TSPAN9provided by HGNC
Official Full Name
tetraspanin 9provided by HGNC
Primary source
HGNC:HGNC:21640
See related
Ensembl:ENSG00000011105 MIM:613137; AllianceGenome:HGNC:21640
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NET5; NET-5; PP1057
Summary
The protein encoded by this gene is a member of the transmembrane 4 superfamily, also known as the tetraspanin family. Most of these members are cell-surface proteins that are characterized by the presence of four hydrophobic domains. The proteins mediate signal transduction events that play a role in the regulation of cell development, activation, growth and motility. Alternatively spliced transcripts encoding the same protein have been identified. [provided by RefSeq, Nov 2009]
Expression
Broad expression in heart (RPKM 31.5), placenta (RPKM 20.4) and 23 other tissues See more
Orthologs
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Genomic context

See TSPAN9 in Genome Data Viewer
Location:
12p13.33-p13.32
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (3077379..3286559)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (3083510..3293033)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (3186545..3395725)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124902859 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:3068733-3069468 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3073099-3073924 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:3075837-3076336 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3090196-3090815 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3100825-3101326 Neighboring gene Sharpr-MPRA regulatory region 741 Neighboring gene TEA domain transcription factor 4 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3112529-3113410 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3122802-3123643 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3141331-3141892 Neighboring gene Sharpr-MPRA regulatory region 13344 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4138 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4139 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3192842-3193517 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3193518-3194192 Neighboring gene Sharpr-MPRA regulatory region 10584 Neighboring gene ribosomal protein L13a pseudogene 24 Neighboring gene Sharpr-MPRA regulatory region 6988 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3244823-3245324 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3245325-3245824 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3245886-3246736 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3257812-3258357 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3260221-3261034 Neighboring gene TSPAN9 intronic transcript 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:3271635-3272136 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3277658-3278241 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3278242-3278824 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3281002-3281760 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3281761-3282518 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3297721-3298231 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3306798-3307336 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3307337-3307874 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3323859-3324398 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3336210-3336725 Neighboring gene uncharacterized LOC124902861 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3340427-3341425 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3344565-3345246 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3345247-3345928 Neighboring gene ribosomal protein S27 pseudogene 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3351329-3352214 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3352304-3352804 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3373683-3374271 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3373093-3373682 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3393392-3393892 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3393893-3394393 Neighboring gene uncharacterized LOC100128253 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5817 Neighboring gene Sharpr-MPRA regulatory region 1542 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:3421757-3422956 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4140 Neighboring gene long intergenic non-protein coding RNA 2827 Neighboring gene tetraspanin 11 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3435715-3436214 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:3443867-3445066 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3474236-3474788 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3474789-3475339 Neighboring gene long intergenic non-protein coding RNA 2417

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations.
EBI GWAS Catalog
Genome-wide association study of degenerative bony changes of the temporomandibular joint.
EBI GWAS Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
 
Component Evidence Code Pubs
located_in focal adhesion HDA PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in tetraspanin-enriched microdomain IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
tetraspanin-9
Names
new EST tetraspan 5
tetraspan NET-5
transmembrane 4 superfamily member tetraspan NET-5
tspan-9

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001168320.2NP_001161792.1  tetraspanin-9

    See identical proteins and their annotated locations for NP_001161792.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AC005865, AC005912, AC125807
    Consensus CDS
    CCDS8520.1
    UniProtKB/Swiss-Prot
    D3DUQ7, O75954, Q53FV2, Q6FGJ8
    UniProtKB/TrEMBL
    B5MD23
    Related
    ENSP00000444799.1, ENST00000537971.5
    Conserved Domains (2) summary
    cd03165
    Location:105202
    NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...
    pfam00335
    Location:9226
    Tetraspannin; Tetraspanin family
  2. NM_006675.5NP_006666.1  tetraspanin-9

    See identical proteins and their annotated locations for NP_006666.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AC005865, AC005912, AC125807, BC071881
    Consensus CDS
    CCDS8520.1
    UniProtKB/Swiss-Prot
    D3DUQ7, O75954, Q53FV2, Q6FGJ8
    UniProtKB/TrEMBL
    B5MD23
    Related
    ENSP00000011898.5, ENST00000011898.10
    Conserved Domains (2) summary
    cd03165
    Location:105202
    NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...
    pfam00335
    Location:9226
    Tetraspannin; Tetraspanin family

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    3077379..3286559
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047428125.1XP_047284081.1  tetraspanin-9 isoform X2

    UniProtKB/Swiss-Prot
    D3DUQ7, O75954, Q53FV2, Q6FGJ8
    UniProtKB/TrEMBL
    B5MD23
  2. XM_047428128.1XP_047284084.1  tetraspanin-9 isoform X3

  3. XM_047428127.1XP_047284083.1  tetraspanin-9 isoform X3

  4. XM_011520912.4XP_011519214.1  tetraspanin-9 isoform X3

    See identical proteins and their annotated locations for XP_011519214.1

    Conserved Domains (2) summary
    cd03165
    Location:41138
    NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...
    pfam00335
    Location:1166
    Tetraspannin; Tetraspanin family
  5. XM_047428126.1XP_047284082.1  tetraspanin-9 isoform X2

    UniProtKB/Swiss-Prot
    D3DUQ7, O75954, Q53FV2, Q6FGJ8
    UniProtKB/TrEMBL
    B5MD23
  6. XM_047428124.1XP_047284080.1  tetraspanin-9 isoform X1

  7. XM_047428130.1XP_047284086.1  tetraspanin-9 isoform X3

  8. XM_047428129.1XP_047284085.1  tetraspanin-9 isoform X3

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    3083510..3293033
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054370833.1XP_054226808.1  tetraspanin-9 isoform X2

    UniProtKB/Swiss-Prot
    D3DUQ7, O75954, Q53FV2, Q6FGJ8
    UniProtKB/TrEMBL
    B5MD23
  2. XM_054370834.1XP_054226809.1  tetraspanin-9 isoform X2

    UniProtKB/Swiss-Prot
    D3DUQ7, O75954, Q53FV2, Q6FGJ8
    UniProtKB/TrEMBL
    B5MD23
  3. XM_054370838.1XP_054226813.1  tetraspanin-9 isoform X3

  4. XM_054370837.1XP_054226812.1  tetraspanin-9 isoform X3

  5. XM_054370836.1XP_054226811.1  tetraspanin-9 isoform X3

  6. XM_054370835.1XP_054226810.1  tetraspanin-9 isoform X2

    UniProtKB/Swiss-Prot
    D3DUQ7, O75954, Q53FV2, Q6FGJ8
    UniProtKB/TrEMBL
    B5MD23
  7. XM_054370839.1XP_054226814.1  tetraspanin-9 isoform X4

RNA

  1. XR_008488508.1 RNA Sequence