Sptbn4 spectrin, beta, non-erythrocytic 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sptbn4provided by RGD
Official Full Name: spectrin, beta, non-erythrocytic 4provided by RGD
Primary source: RGD:1304682
See related: EnsemblRapid:ENSRNOG00000055371 AllianceGenome:RGD:1304682
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: Spnb4
Summary: Predicted to enable cytoskeletal protein binding activity and phosphatase binding activity. Predicted to be involved in protein localization to plasma membrane. Predicted to act upstream of or within several processes, including adult walking behavior; neuron development; and regulation of heart contraction. Located in axon initial segment; cytoplasm; and node of Ranvier. Orthologous to human SPTBN4 (spectrin beta, non-erythrocytic 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 59.8), Spleen (RPKM 6.0) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q21

Exon count:: 38

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (91778379..91865970, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (82650750..82738345, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (84168494..84254679, complement)

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 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?

study of the organization of actin, spectrin and associated proteins in neurons; spectrin exhibited periodic structures alternating with those of actin and adducin; the distance between adjacent actin-adducin rings was comparable to the length of a spectrin tetramer
Title: Actin, spectrin, and associated proteins form a periodic cytoskeletal structure in axons.

Submit: New GeneRIF Correction

General gene information

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Markers

G67801 (e-PCR)
- UniSTS:225577

MARC_14429-14430:1010078261:1 (e-PCR)
- UniSTS:267666

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables actin binding	ISO Inferred from Sequence Orthology more info
enables ankyrin binding	ISO Inferred from Sequence Orthology more info
enables phosphatase binding	ISO Inferred from Sequence Orthology more info
enables phospholipid binding	IEA Inferred from Electronic Annotation more info
enables spectrin binding	ISO Inferred from Sequence Orthology more info
enables structural constituent of cytoskeleton	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in actin filament capping	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within adult behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within adult walking behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within axonogenesis	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within cardiac conduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within central nervous system projection neuron axonogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within clustering of voltage-gated sodium channels	ISO Inferred from Sequence Orthology more info
involved_in clustering of voltage-gated sodium channels	ISO Inferred from Sequence Orthology more info
involved_in cytoskeleton organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within fertilization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of heart rate	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuromuscular junction development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuromuscular process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of multicellular organism growth	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization	ISO Inferred from Sequence Orthology more info
involved_in protein localization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein-containing complex assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of peptidyl-serine phosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of sodium ion transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sensory perception of sound	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within transmission of nerve impulse	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in PML body	ISO Inferred from Sequence Orthology more info
located_in actin filament	ISO Inferred from Sequence Orthology more info
located_in adherens junction	ISO Inferred from Sequence Orthology more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axon	ISO Inferred from Sequence Orthology more info
located_in axon hillock	ISO Inferred from Sequence Orthology more info
located_in axon initial segment	IDA Inferred from Direct Assay more info	PubMed
located_in axon initial segment	ISO Inferred from Sequence Orthology more info
located_in cell body fiber	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in intercalated disc	ISO Inferred from Sequence Orthology more info
is_active_in juxtaparanode region of axon	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in node of Ranvier	IDA Inferred from Direct Assay more info	PubMed
is_active_in node of Ranvier	ISO Inferred from Sequence Orthology more info
located_in node of Ranvier	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	ISO Inferred from Sequence Orthology more info
located_in paranode region of axon	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
part_of spectrin	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: spectrin beta chain, non-erythrocytic 4

Names: spectrin beta 4; spectrin beta chain, brain 3

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_001100845.2 → NP_001094315.2 spectrin beta chain, non-erythrocytic 4

Status: VALIDATED

Source sequence(s)

BE107551, JAXUCZ010000001

UniProtKB/TrEMBL

A0A0G2K677, A0A8I6ASR7

Conserved Domains (6) summary

smart00150
Location:1087 → 1191

SPEC; Spectrin repeats

cd00014
Location:182 → 285

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:1512 → 1723

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:2418 → 2522

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00169
Location:2416 → 2518

PH; PH domain

pfam00435
Location:1830 → 1929

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

91778379..91865970 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039111540.2 → XP_038967468.1 spectrin beta chain, non-erythrocytic 4 isoform X2

UniProtKB/TrEMBL

A0A8I6ASR7

Conserved Domains (6) summary

smart00150
Location:1106 → 1210

SPEC; Spectrin repeats

cd00176
Location:1531 → 1742

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:2437 → 2541

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00435
Location:1849 → 1948

Spectrin; Spectrin repeat

cd21322
Location:185 → 314

CH_SPTBN4_rpt2; second calponin homology (CH) domain found in spectrin beta chain, non-erythrocytic 4 (SPTBN4) and similar proteins

cl00030
Location:44 → 183

CH_SF; calponin homology (CH) domain superfamily
XM_017589120.3 → XP_017444609.1 spectrin beta chain, non-erythrocytic 4 isoform X1

UniProtKB/TrEMBL

A0A8I6ASR7

Conserved Domains (6) summary

smart00150
Location:1135 → 1239

SPEC; Spectrin repeats

cd00014
Location:230 → 333

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:1560 → 1771

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:2466 → 2570

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00169
Location:2464 → 2566

PH; PH domain

pfam00435
Location:1878 → 1977

Spectrin; Spectrin repeat
XM_008759141.4 → XP_008757363.1 spectrin beta chain, non-erythrocytic 4 isoform X1

See identical proteins and their annotated locations for XP_008757363.1

UniProtKB/TrEMBL

A0A8I6ASR7

Related

ENSRNOP00000073706.2, ENSRNOT00000077651.3

Conserved Domains (6) summary

smart00150
Location:1135 → 1239

SPEC; Spectrin repeats

cd00014
Location:230 → 333

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:1560 → 1771

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:2466 → 2570

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00169
Location:2464 → 2566

PH; PH domain

pfam00435
Location:1878 → 1977

Spectrin; Spectrin repeat
XM_039111543.2 → XP_038967471.1 spectrin beta chain, non-erythrocytic 4 isoform X3

UniProtKB/TrEMBL

A0A8I6ASR7

Conserved Domains (6) summary

smart00150
Location:972 → 1076

SPEC; Spectrin repeats

COG5069
Location:1 → 289

SAC6; Ca2+-binding actin-bundling protein fimbrin/plastin (EF-Hand superfamily) [Cytoskeleton]

cd00176
Location:1397 → 1608

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:2303 → 2407

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00435
Location:1715 → 1814

Spectrin; Spectrin repeat

cd21322
Location:51 → 180

CH_SPTBN4_rpt2; second calponin homology (CH) domain found in spectrin beta chain, non-erythrocytic 4 (SPTBN4) and similar proteins
XM_017589122.2 → XP_017444611.1 spectrin beta chain, non-erythrocytic 4 isoform X4

UniProtKB/TrEMBL

A0A8I6ASR7
XM_063261472.1 → XP_063117542.1 spectrin beta chain, non-erythrocytic 4 isoform X5
XM_017589123.2 → XP_017444612.1 spectrin beta chain, non-erythrocytic 4 isoform X5