Selected-GenAtlas references	SOURCE	GeneCards	NCBI Gene	Swiss-Prot	Ensembl
	HGNC	UniGene	Nucleotide	OMIM	UCSC

Home Page

FLASH GENE

Symbol

RBM39

contributors: mct - updated : 26-01-2013

HGNC name	RNA binding motif protein 39
HGNC id	15923

FLASH GENE DNA RNA EXPRESSION PROTEIN DISORDER ANIMAL & CELL MODELS

Location	20q11.23      Physical location : 34.291.531 - 34.330.193
Synonym name	coactivator of activating protein 1 and estrogen receptors
	RNA-binding region (RNP1, RRM) containing 2
	hepatocellular carcinoma protein 1
	splicing factor CC1.3
Synonym symbol(s)	HCC1, CAPER, CC1.3, RNPC2, FLJ44170, DKFZp781C0423, Caper alpha

DNA

TYPE	functioning gene
STRUCTURE	38.72 kb     17 Exon(s)

MAPPING

cloned

Y

linked

N

status

provisional

RNA

TRANSCRIPTS	type	messenger

identification nb exons type bp product Protein kDa AA specific expression Year Pubmed NM_184234 17 - 2881 NP_909122 59 530 - 2002 11704680 NM_004902 17 - 2863 NP_004893 - 524 - 2002 11704680 NM_001242600 16 - 2797 NP_001229529 - 502 - 2002 11704680 NM_001242599 16 - 2815 NP_001229528 - 508 - 2002 11704680

EXPRESSION

Type	ubiquitous

expressed in	(based on citations)
organ(s)	System Organ level 1 Organ level 2 Organ level 3 Organ level 4 Level Pubmed Species Stage Rna symbol blood / hematopoietic spleen         Cardiovascular heart         Endocrine thyroid         Nervous brain         Reproductive female system ovary       Respiratory lung

tissue

System Tissue Tissue level 1 Tissue level 2 Level Pubmed Species Stage Rna symbol Epithelial secretory glandular endocrine   Lymphoid         Muscular striatum skeletal

cell lineage

cell lines

fluid/secretion

at STAGE

PROTEIN

PHYSICAL PROPERTIES

STRUCTURE

motifs/domains

three RNA recognition motif

HOMOLOGY

interspecies

homolog to murine Rnpc2

Homologene

FAMILY	splicing factor SR family
	U2AF65 family of proteins

CATEGORY

regulatory

SUBCELLULAR LOCALIZATION	intracellular
	intracellular,cytoplasm,cytoskeleton,microtubule,centrosome
	intracellular,nucleus,nucleoplasm,nuclear bodies,nuclear speckles
text	concentrated in nuclear speckles
	colocalizes with the core spliceosomal snRNP proteins

basic FUNCTION	containing motifs characteristic of splicing factors
	coactivator of activating protein and estrogen receptors
	RBM23 and RBM39 regulate both steroid hormone receptor-mediated transcription and alternative splicing
	new transcriptional coregulator for REL and reveals an important role in modulating REL oncogenic activity
	mediates alternative splicing and controls the shift from VEGFA(189) to VEGFA(165), found in Ewing sarcoma cells

CELLULAR PROCESS

nucleotide, RNA splicing

PHYSIOLOGICAL PROCESS

PATHWAY

metabolism

signaling

a component

INTERACTION

DNA

RNA

small molecule

protein	interacts with NCOA6
	alternative splicing functions of PCBP1 mediated by its intrinsic interaction with RBM39, a U2 snRNP auxiliary factor-related protein previously implicated in RNA splicing
	interacting wth U2AF2
	IGF2BP1 and RBM39 shifted the splicing ratio of ISCU toward the incorrect splice form, enhancing myopathy with lactic acidosis
	BMP4-dependent transcription is negatively autoregulated in part by SIN3B alternative splicing, and RBM39 plays a role in this process

cell & other

REGULATION

ASSOCIATED DISORDERS

ANIMAL & CELL MODELS