Carmil1 capping protein regulator and myosin 1 linker 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Carmil1provided by RGD
Official Full Name: capping protein regulator and myosin 1 linker 1provided by RGD
Primary source: RGD:1306623
See related: EnsemblRapid:ENSRNOG00000016576 AllianceGenome:RGD:1306623
Gene type: protein coding
RefSeq status: INFERRED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Lrrc16; Lrrc16a
Summary: Predicted to be involved in several processes, including actin filament network formation; plasma membrane bounded cell projection organization; and regulation of actin filament organization. Predicted to be located in several cellular components, including cell leading edge; macropinosome; and nuclear speck. Predicted to be part of filamentous actin. Predicted to be active in lamellipodium and plasma membrane. Orthologous to human CARMIL1 (capping protein regulator and myosin 1 linker 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Testes (RPKM 137.4), Adrenal (RPKM 135.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 17p11

Exon count:: 42

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	17	NC_086035.1 (41235819..41516204)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	17	NC_051352.1 (40807921..41088326)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	17	NC_005116.4 (43050282..43339403)

Chromosome 17 - NC_086035.1 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?

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General gene information

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Markers

AI425970 (e-PCR)
- UniSTS:160278

AU049997 (e-PCR)
- UniSTS:115890

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in actin filament network formation	ISO Inferred from Sequence Orthology more info
involved_in barbed-end actin filament uncapping	ISO Inferred from Sequence Orthology more info
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell migration	ISO Inferred from Sequence Orthology more info
involved_in lamellipodium assembly	ISO Inferred from Sequence Orthology more info
involved_in macropinocytosis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of barbed-end actin filament capping	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of actin filament polymerization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of lamellipodium organization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of stress fiber assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of substrate adhesion-dependent cell spreading	ISO Inferred from Sequence Orthology more info
involved_in regulation of Arp2/3 complex-mediated actin nucleation	IBA Inferred from Biological aspect of Ancestor more info
involved_in ruffle organization	ISO Inferred from Sequence Orthology more info
involved_in urate metabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell leading edge	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
part_of filamentous actin	ISO Inferred from Sequence Orthology more info
is_active_in lamellipodium	IBA Inferred from Biological aspect of Ancestor more info
located_in lamellipodium	ISO Inferred from Sequence Orthology more info
located_in macropinosome	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
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

General protein information

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Preferred Names: F-actin-uncapping protein LRRC16A

Names: leucine rich repeat containing 16; leucine rich repeat containing 16A; leucine-rich repeat-containing protein 16A

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_001191692.1 → NP_001178621.1 F-actin-uncapping protein LRRC16A

Status: INFERRED

Source sequence(s)

JAXUCZ010000017

UniProtKB/TrEMBL

A0A0G2JXG7, A0A8I6AJW0

Related

ENSRNOP00000056268.4, ENSRNOT00000059510.5

Conserved Domains (4) summary

cd00116
Location:229 → 373

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00031
Location:248 → 275

LRR_1; leucine-rich repeat [structural motif]

sd00033
Location:339 → 366

LRR_RI; leucine-rich repeat [structural motif]

pfam16000
Location:790 → 1080

CARMIL_C; CARMIL C-terminus

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_086035.1 Reference GRCr8

Range

41235819..41516204

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063276423.1 → XP_063132493.1 F-actin-uncapping protein LRRC16A isoform X9
XM_063276428.1 → XP_063132498.1 F-actin-uncapping protein LRRC16A isoform X13

Related

ENSRNOP00000081294.2, ENSRNOT00000117749.2
XM_063276429.1 → XP_063132499.1 F-actin-uncapping protein LRRC16A isoform X14
XM_063276430.1 → XP_063132500.1 F-actin-uncapping protein LRRC16A isoform X14
XM_063276420.1 → XP_063132490.1 F-actin-uncapping protein LRRC16A isoform X5
XM_063276421.1 → XP_063132491.1 F-actin-uncapping protein LRRC16A isoform X6
XM_063276431.1 → XP_063132501.1 F-actin-uncapping protein LRRC16A isoform X15

Related

ENSRNOP00000099065.1, ENSRNOT00000121246.1
XM_008771642.4 → XP_008769864.2 F-actin-uncapping protein LRRC16A isoform X1

UniProtKB/TrEMBL

A0A8I6AJW0
XM_063276422.1 → XP_063132492.1 F-actin-uncapping protein LRRC16A isoform X7
XM_063276425.1 → XP_063132495.1 F-actin-uncapping protein LRRC16A isoform X11
XM_063276426.1 → XP_063132496.1 F-actin-uncapping protein LRRC16A isoform X11
XM_063276427.1 → XP_063132497.1 F-actin-uncapping protein LRRC16A isoform X11
XM_063276418.1 → XP_063132488.1 F-actin-uncapping protein LRRC16A isoform X2

Related

ENSRNOP00000085444.2, ENSRNOT00000108358.2
XM_008771644.4 → XP_008769866.2 F-actin-uncapping protein LRRC16A isoform X3

UniProtKB/TrEMBL

A0A8I6AJW0

Related

ENSRNOP00000095539.2, ENSRNOT00000104932.2
XM_017600541.3 → XP_017456030.1 F-actin-uncapping protein LRRC16A isoform X8

UniProtKB/TrEMBL

A0A8I6AJW0

Related

ENSRNOP00000070264.3, ENSRNOT00000080745.3
XM_039095698.2 → XP_038951626.1 F-actin-uncapping protein LRRC16A isoform X12

UniProtKB/TrEMBL

A0A8I6A2B1, A0A8I6G5R0

Related

ENSRNOP00000102732.1, ENSRNOT00000164795.1

Conserved Domains (6) summary

PHA02682
Location:1128 → 1279

PHA02682; ORF080 virion core protein; Provisional

sd00031
Location:248 → 275

LRR_1; leucine-rich repeat [structural motif]

sd00033
Location:339 → 366

LRR_RI; leucine-rich repeat [structural motif]

pfam16000
Location:786 → 1076

CARMIL_C; CARMIL C-terminus

pfam17888
Location:38 → 119

Carm_PH; Carmil pleckstrin homology domain

cl39015
Location:281 → 595

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
XM_063276419.1 → XP_063132489.1 F-actin-uncapping protein LRRC16A isoform X4
XM_063276424.1 → XP_063132494.1 F-actin-uncapping protein LRRC16A isoform X10