Ablim1 actin-binding LIM protein 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Ablim1provided by RGD
Full Name: actin-binding LIM protein 1provided by RGD
Primary source: RGD:1565768
See related: EnsemblRapid:ENSRNOG00000046333 AllianceGenome:RGD:1565768
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: RGD1565768
Summary: Predicted to enable actin binding activity. Predicted to be involved in cytoskeleton organization. Predicted to act upstream of or within plasma membrane bounded cell projection organization and positive regulation of transcription by RNA polymerase II. Predicted to be located in lamellipodium and stress fiber. Predicted to be active in postsynaptic density. Orthologous to human ABLIM1 (actin binding LIM protein 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Heart (RPKM 402.2), Thymus (RPKM 205.0) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q55

Exon count:: 36

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (266088868..266377169, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (256083747..256372075, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (277853877..278043096, complement)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

Submit: New GeneRIF Correction

General gene information

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Markers

RH128661 (e-PCR)
- UniSTS:211969

BF388033 (e-PCR)
- UniSTS:244804

BF386652 (e-PCR)
- UniSTS:243803

BF399361 (e-PCR)
- UniSTS:247650

RH144593 (e-PCR)
- UniSTS:233838

RH141446 (e-PCR)
- UniSTS:223440

RH129917 (e-PCR)
- UniSTS:213205

AA944848 (e-PCR)
- UniSTS:250335

BF387847 (e-PCR)
- UniSTS:244453

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables actin binding	ISO Inferred from Sequence Orthology more info
enables actin filament binding	IBA Inferred from Biological aspect of Ancestor more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within axon guidance	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in cilium assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cilium assembly	ISO Inferred from Sequence Orthology more info
involved_in cytoskeleton organization	IEA Inferred from Electronic Annotation more info
involved_in lamellipodium assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within lamellipodium assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in actin cytoskeleton	IBA Inferred from Biological aspect of Ancestor more info
located_in actin cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in lamellipodium	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info
is_active_in stress fiber	IBA Inferred from Biological aspect of Ancestor more info
located_in stress fiber	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: actin-binding LIM protein 1

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_001395154.1 → NP_001382083.1 actin-binding LIM protein 1 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/TrEMBL

A0A8I5Y6A1, A0A8I5ZVV8

Related

ENSRNOP00000076718.2, ENSRNOT00000106287.2

Conserved Domains (5) summary

smart00153
Location:828 → 863

VHP; Villin headpiece domain

cd09327
Location:100 → 151

LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins

cd09328
Location:156 → 211

LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins

cd09329
Location:227 → 278

LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins

cd09330
Location:286 → 341

LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
NM_001395155.1 → NP_001382084.1 actin-binding LIM protein 1 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/TrEMBL

A0A0G2JW01, Q3KR72

Related

ENSRNOP00000069687.3, ENSRNOT00000078416.3

Conserved Domains (3) summary

smart00153
Location:392 → 427

VHP; Villin headpiece domain

pfam16182
Location:33 → 391

AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

cl02475
Location:1 → 24

LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

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

266088868..266377169 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039110220.2 → XP_038966148.1 actin-binding LIM protein 1 isoform X31

UniProtKB/TrEMBL

A0A8I6A592

Related

ENSRNOP00000089021.2, ENSRNOT00000108182.2

Conserved Domains (6) summary

smart00153
Location:734 → 769

VHP; Villin headpiece domain

cd09327
Location:60 → 111

LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins

cd09328
Location:116 → 171

LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins

cd09329
Location:187 → 238

LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins

cd09330
Location:246 → 301

LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins

pfam16182
Location:338 → 733

AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM
XM_039110327.2 → XP_038966255.1 actin-binding LIM protein 1 isoform X32

UniProtKB/TrEMBL

A0A8I5ZVV8

Related

ENSRNOP00000082920.2, ENSRNOT00000094452.2

Conserved Domains (6) summary

smart00153
Location:723 → 758

VHP; Villin headpiece domain

cd09327
Location:126 → 177

LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins

cd09328
Location:182 → 237

LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins

cd09329
Location:253 → 304

LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins

cd09330
Location:312 → 367

LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins

pfam16182
Location:376 → 722

AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM
XM_039110316.2 → XP_038966244.1 actin-binding LIM protein 1 isoform X30

UniProtKB/TrEMBL

A0A8I5ZVV8

Conserved Domains (6) summary

smart00153
Location:743 → 778

VHP; Villin headpiece domain

cd09327
Location:99 → 150

LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins

cd09328
Location:155 → 210

LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins

cd09329
Location:226 → 277

LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins

cd09330
Location:285 → 340

LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins

pfam16182
Location:349 → 742

AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM
XM_063288242.1 → XP_063144312.1 actin-binding LIM protein 1 isoform X27
XM_063288169.1 → XP_063144239.1 actin-binding LIM protein 1 isoform X6
XM_063288185.1 → XP_063144255.1 actin-binding LIM protein 1 isoform X9
XM_063288152.1 → XP_063144222.1 actin-binding LIM protein 1 isoform X2
XM_063288149.1 → XP_063144219.1 actin-binding LIM protein 1 isoform X1
XM_063288164.1 → XP_063144234.1 actin-binding LIM protein 1 isoform X4
XM_063288167.1 → XP_063144237.1 actin-binding LIM protein 1 isoform X5
XM_063288159.1 → XP_063144229.1 actin-binding LIM protein 1 isoform X3
XM_063288172.1 → XP_063144242.1 actin-binding LIM protein 1 isoform X7
XM_063288216.1 → XP_063144286.1 actin-binding LIM protein 1 isoform X16
XM_063288221.1 → XP_063144291.1 actin-binding LIM protein 1 isoform X18
XM_063288189.1 → XP_063144259.1 actin-binding LIM protein 1 isoform X10
XM_063288194.1 → XP_063144264.1 actin-binding LIM protein 1 isoform X11
XM_063288206.1 → XP_063144276.1 actin-binding LIM protein 1 isoform X14
XM_063288177.1 → XP_063144247.1 actin-binding LIM protein 1 isoform X8
XM_063288202.1 → XP_063144272.1 actin-binding LIM protein 1 isoform X12
XM_063288205.1 → XP_063144275.1 actin-binding LIM protein 1 isoform X13
XM_063288219.1 → XP_063144289.1 actin-binding LIM protein 1 isoform X17
XM_063288210.1 → XP_063144280.1 actin-binding LIM protein 1 isoform X15
XM_063288237.1 → XP_063144307.1 actin-binding LIM protein 1 isoform X25
XM_063288226.1 → XP_063144296.1 actin-binding LIM protein 1 isoform X19
XM_063288235.1 → XP_063144305.1 actin-binding LIM protein 1 isoform X24
XM_063288228.1 → XP_063144298.1 actin-binding LIM protein 1 isoform X21
XM_063288233.1 → XP_063144303.1 actin-binding LIM protein 1 isoform X22
XM_063288227.1 → XP_063144297.1 actin-binding LIM protein 1 isoform X20
XM_039110273.2 → XP_038966201.1 actin-binding LIM protein 1 isoform X23

Conserved Domains (5) summary

cd09327
Location:60 → 111

LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins

cd09328
Location:116 → 171

LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins

cd09329
Location:187 → 238

LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins

cd09330
Location:246 → 301

LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins

pfam16182
Location:354 → 576

AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM
XM_039110288.2 → XP_038966216.1 actin-binding LIM protein 1 isoform X26

Conserved Domains (5) summary

cd09327
Location:60 → 111

LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins

cd09328
Location:116 → 171

LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins

cd09329
Location:187 → 238

LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins

cd09330
Location:246 → 301

LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins

pfam16182
Location:354 → 501

AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM
XM_039110296.2 → XP_038966224.1 actin-binding LIM protein 1 isoform X28

Conserved Domains (5) summary

cd09327
Location:60 → 111

LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins

cd09328
Location:116 → 171

LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins

cd09329
Location:187 → 238

LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins

cd09330
Location:246 → 301

LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins

pfam16182
Location:354 → 431

AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM
XM_063288249.1 → XP_063144319.1 actin-binding LIM protein 1 isoform X29

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001044394.1: Suppressed sequence

Description

NM_001044394.1: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.
NM_001372054.2: Suppressed sequence

Description

NM_001372054.2: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.