Sptbn2 spectrin, beta, non-erythrocytic 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sptbn2provided by RGD
Official Full Name: spectrin, beta, non-erythrocytic 2provided by RGD
Primary source: RGD:3751
See related: Ensembl:ENSRNOG00000058842 AllianceGenome:RGD:3751
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Spnb3
Summary: Predicted to enable actin filament binding activity. Predicted to be a structural constituent of synapse. Involved in cellular response to ethanol and synaptic vesicle exocytosis. Located in several cellular components, including Golgi membrane; cytoplasmic vesicle; and perinuclear region of cytoplasm. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 14 and spinocerebellar ataxia type 5. Orthologous to human SPTBN2 (spectrin beta, non-erythrocytic 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 641.4), Kidney (RPKM 105.9) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 1q43

Exon count:: 40

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (211432373..211473016)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (202002970..202045343)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (219964429..220006811)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Results revealed that betaII-spectrin was degraded into major fragments of 110/85 kDa by calpain-2 activation and 108/80 kDa by caspase-3 activation.
Title: Degradation of βII-Spectrin Protein by Calpain-2 and Caspase-3 Under Neurotoxic and Traumatic Brain Injury Conditions.
betaIII spectrin regulates the structural integrity and the secretory protein transport of the Golgi complex
Title: βIII spectrin regulates the structural integrity and the secretory protein transport of the Golgi complex.
the embryonic mammalian heart expresses a significant amount of alpha II-spectrin with a reduced avidity for beta-spectrin and the ability to promote myocyte growth
Title: Characterization and expression of a heart-selective alternatively spliced variant of alpha II-spectrin, cardi+, during development in the rat.
role in fragmentation of the Golgi apparatus
Title: Fragmentation of the Golgi apparatus. A role for beta III spectrin and synthesis of phosphatidylinositol 4,5-bisphosphate.
Arp1 binds directly to the Golgi-associated betaIII spectrin isoform; interaction recruits dynein and dynactin to intracellular membranes and provides a direct link between the microtubule motor complex and its membrane-bounded cargo
Title: beta III spectrin binds to the Arp1 subunit of dynactin.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

UniSTS:224954 (e-PCR)
- UniSTS:224954

AI228952 (e-PCR)
- UniSTS:261865

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables actin filament binding	IBA Inferred from Biological aspect of Ancestor more info
enables phospholipid binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables structural constituent of cytoskeleton	IEA Inferred from Electronic Annotation more info
enables structural constituent of cytoskeleton	TAS Traceable Author Statement more info	PubMed
enables structural constituent of postsynapse	IEA Inferred from Electronic Annotation more info
enables structural constituent of postsynapse	ISO Inferred from Sequence Orthology more info
enables structural constituent of synapse	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in actin cytoskeleton organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in actin filament capping	IEA Inferred from Electronic Annotation more info
involved_in adult behavior	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within adult behavior	ISO Inferred from Sequence Orthology more info
involved_in cellular response to ethanol	IEP Inferred from Expression Pattern more info	PubMed
involved_in cerebellar Purkinje cell layer morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cerebellar Purkinje cell layer morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in multicellular organism growth	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in postsynapse organization	IEA Inferred from Electronic Annotation more info
involved_in postsynapse organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of calcium ion-dependent exocytosis	TAS Traceable Author Statement more info	PubMed
involved_in regulation of postsynaptic specialization assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of postsynaptic specialization assembly	ISO Inferred from Sequence Orthology more info
involved_in synapse assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in synaptic vesicle docking	TAS Traceable Author Statement more info	PubMed
involved_in synaptic vesicle exocytosis	IPI Inferred from Physical Interaction more info	PubMed
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info
involved_in vesicle-mediated transport	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Golgi membrane	IDA Inferred from Direct Assay more info	PubMed
located_in apical plasma membrane	IEA Inferred from Electronic Annotation more info
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in cell junction	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cell projection	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cortical actin cytoskeleton	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	TAS Traceable Author Statement more info	PubMed
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	TAS Traceable Author Statement more info
located_in endosome	IDA Inferred from Direct Assay more info	PubMed
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IEA Inferred from Electronic Annotation more info
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	TAS Traceable Author Statement more info	PubMed
located_in parallel fiber to Purkinje cell synapse	IEA Inferred from Electronic Annotation more info
is_active_in parallel fiber to Purkinje cell synapse	ISO Inferred from Sequence Orthology more info
located_in paranodal junction	IEA Inferred from Electronic Annotation more info
is_active_in paranodal junction	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic spectrin-associated cytoskeleton	IEA Inferred from Electronic Annotation more info
is_active_in postsynaptic spectrin-associated cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in presynapse	IEA Inferred from Electronic Annotation more info
is_active_in presynapse	ISO Inferred from Sequence Orthology more info
part_of spectrin	IEA Inferred from Electronic Annotation more info
part_of spectrin	ISO Inferred from Sequence Orthology more info
part_of spectrin	TAS Traceable Author Statement more info	PubMed
located_in synaptic vesicle	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: spectrin beta chain, non-erythrocytic 2

Names: beta SpIII sigma 1; beta-III spectrin; beta-spectrin 3; glutamate transporter EAAT4-associated protein 41; spectrin beta chain, brain 2; spectrin, non-erythroid beta chain 2; spectrin-like protein GTRAP41

NCBI Reference Sequences (RefSeq)

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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)

NM_019167.2 → NP_062040.2 spectrin beta chain, non-erythrocytic 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

O88197, Q9ES68, Q9QWN8

UniProtKB/TrEMBL

A6HYY4

Related

ENSRNOP00000070189.2, ENSRNOT00000088288.2

Conserved Domains (7) summary

smart00150
Location:2018 → 2075

SPEC; Spectrin repeats

smart00033
Location:61 → 159

CH; Calponin homology domain

cd00014
Location:177 → 280

CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...

cd00176
Location:1384 → 1588

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

cd10571
Location:2221 → 2324

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00169
Location:2242 → 2324

PH; PH domain

pfam00435
Location:429 → 522

Spectrin; Spectrin repeat

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

211432373..211473016

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008760094.4 → XP_008758316.1 spectrin beta chain, non-erythrocytic 2 isoform X2

See identical proteins and their annotated locations for XP_008758316.1

UniProtKB/Swiss-Prot

O88197, Q9ES68, Q9QWN8

UniProtKB/TrEMBL

A6HYY4

Conserved Domains (7) summary

smart00150
Location:2018 → 2075

SPEC; Spectrin repeats

smart00033
Location:61 → 159

CH; Calponin homology domain

cd00014
Location:177 → 280

CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...

cd00176
Location:1384 → 1588

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

cd10571
Location:2221 → 2324

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00169
Location:2242 → 2324

PH; PH domain

pfam00435
Location:429 → 522

Spectrin; Spectrin repeat
XM_039103158.2 → XP_038959086.1 spectrin beta chain, non-erythrocytic 2 isoform X3

UniProtKB/Swiss-Prot

O88197, Q9ES68, Q9QWN8

Conserved Domains (6) summary

smart00150
Location:2025 → 2082

SPEC; Spectrin repeats

cd00176
Location:1391 → 1595

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

cd10571
Location:2228 → 2321

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00435
Location:436 → 529

Spectrin; Spectrin repeat

cd21246
Location:52 → 166

CH_SPTB-like_rpt1; first calponin homology (CH) domain found in the beta-I spectrin-like subfamily

cd21321
Location:180 → 298

CH_SPTBN2_rpt2; second calponin homology (CH) domain found in spectrin beta chain, non-erythrocytic 2 (SPTBN2) and similar proteins
XM_008760092.4 → XP_008758314.1 spectrin beta chain, non-erythrocytic 2 isoform X1

UniProtKB/Swiss-Prot

O88197, Q9ES68, Q9QWN8

UniProtKB/TrEMBL

A0A8I6A0L7

Related

ENSRNOP00000086115.1

Conserved Domains (7) summary

smart00150
Location:2025 → 2082

SPEC; Spectrin repeats

smart00033
Location:68 → 166

CH; Calponin homology domain

cd00014
Location:184 → 287

CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...

cd00176
Location:1391 → 1595

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

cd10571
Location:2228 → 2331

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00169
Location:2249 → 2331

PH; PH domain

pfam00435
Location:436 → 529

Spectrin; Spectrin repeat