SLBP (stem-loop histone mRNA binding protein)

Gene

• Entrez ID: 7884
• Gene name: Stem-loop histone mRNA binding protein
• Gene symbol: SLBP
• Synonyms: HBP
• Chromosome: 4
• Chromosome location: 4p16.3
• Summary: This gene encodes a protein that binds to the stem-loop structure in replication-dependent histone mRNAs. Histone mRNAs do not contain introns or polyadenylation signals, and are processed by endonucleolytic cleavage. The stem-loop structure is essential

miRNA

miRTarBase ID	miRNA	Experiments	Reference
MIRT023573	hsa-miR-1-3p	Microarray	18668037
MIRT029110	hsa-miR-26b-5p	Microarray	19088304
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT661929	hsa-miR-4643	HITS-CLIP	23824327
MIRT609761	hsa-miR-8064	HITS-CLIP	23824327
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT609761	hsa-miR-8064	HITS-CLIP	23824327
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT609761	hsa-miR-8064	HITS-CLIP	23824327
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT609761	hsa-miR-8064	HITS-CLIP	23824327
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT609761	hsa-miR-8064	HITS-CLIP	23824327
MIRT554244	hsa-miR-129-5p	PAR-CLIP	21572407
MIRT554243	hsa-miR-548e-5p	PAR-CLIP	21572407
MIRT554242	hsa-miR-3942-5p	PAR-CLIP	21572407
MIRT554241	hsa-miR-4703-5p	PAR-CLIP	21572407
MIRT554240	hsa-miR-4733-5p	PAR-CLIP	21572407
MIRT554239	hsa-miR-3124-3p	PAR-CLIP	21572407
MIRT554238	hsa-miR-106a-3p	PAR-CLIP	21572407
MIRT554237	hsa-miR-450b-5p	PAR-CLIP	21572407
MIRT554236	hsa-miR-507	PAR-CLIP	21572407
MIRT554235	hsa-miR-557	PAR-CLIP	21572407
MIRT554234	hsa-miR-3680-3p	PAR-CLIP	21572407
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT661929	hsa-miR-4643	HITS-CLIP	23824327
MIRT609761	hsa-miR-8064	HITS-CLIP	23824327
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT609761	hsa-miR-8064	HITS-CLIP	23824327
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT609761	hsa-miR-8064	HITS-CLIP	23824327
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT609761	hsa-miR-8064	HITS-CLIP	23824327
MIRT609764	hsa-miR-8485	HITS-CLIP	23824327
MIRT609763	hsa-miR-329-3p	HITS-CLIP	23824327
MIRT609762	hsa-miR-362-3p	HITS-CLIP	23824327
MIRT609761	hsa-miR-8064	HITS-CLIP	23824327
MIRT554244	hsa-miR-129-5p	PAR-CLIP	21572407
MIRT554243	hsa-miR-548e-5p	PAR-CLIP	21572407
MIRT554242	hsa-miR-3942-5p	PAR-CLIP	21572407
MIRT554241	hsa-miR-4703-5p	PAR-CLIP	21572407
MIRT554240	hsa-miR-4733-5p	PAR-CLIP	21572407
MIRT554239	hsa-miR-3124-3p	PAR-CLIP	21572407
MIRT554238	hsa-miR-106a-3p	PAR-CLIP	21572407
MIRT554237	hsa-miR-450b-5p	PAR-CLIP	21572407
MIRT554236	hsa-miR-507	PAR-CLIP	21572407
MIRT554235	hsa-miR-557	PAR-CLIP	21572407
MIRT554234	hsa-miR-3680-3p	PAR-CLIP	21572407
MIRT1351553	hsa-miR-10a	CLIP-seq
MIRT1351554	hsa-miR-10b	CLIP-seq
MIRT1351555	hsa-miR-1246	CLIP-seq
MIRT1351556	hsa-miR-1269	CLIP-seq
MIRT1351557	hsa-miR-1269b	CLIP-seq
MIRT1351558	hsa-miR-1276	CLIP-seq
MIRT1351559	hsa-miR-1297	CLIP-seq
MIRT1351560	hsa-miR-136	CLIP-seq
MIRT1351561	hsa-miR-208a	CLIP-seq
MIRT1351562	hsa-miR-208b	CLIP-seq
MIRT1351563	hsa-miR-2116	CLIP-seq
MIRT1351564	hsa-miR-219-5p	CLIP-seq
MIRT1351565	hsa-miR-26a	CLIP-seq
MIRT1351566	hsa-miR-26b	CLIP-seq
MIRT1351567	hsa-miR-3120-3p	CLIP-seq
MIRT1351568	hsa-miR-3157-3p	CLIP-seq
MIRT1351569	hsa-miR-3194-5p	CLIP-seq
MIRT1351570	hsa-miR-3198	CLIP-seq
MIRT1351571	hsa-miR-3614-3p	CLIP-seq
MIRT1351572	hsa-miR-3662	CLIP-seq
MIRT1351573	hsa-miR-3667-5p	CLIP-seq
MIRT1351574	hsa-miR-3668	CLIP-seq
MIRT1351575	hsa-miR-3919	CLIP-seq
MIRT1351576	hsa-miR-3924	CLIP-seq
MIRT1351577	hsa-miR-410	CLIP-seq
MIRT1351578	hsa-miR-4254	CLIP-seq
MIRT1351579	hsa-miR-4263	CLIP-seq
MIRT1351580	hsa-miR-4297	CLIP-seq
MIRT1351581	hsa-miR-4308	CLIP-seq
MIRT1351582	hsa-miR-4309	CLIP-seq
MIRT1351583	hsa-miR-4311	CLIP-seq
MIRT1351584	hsa-miR-432	CLIP-seq
MIRT1351585	hsa-miR-4435	CLIP-seq
MIRT1351586	hsa-miR-4445	CLIP-seq
MIRT1351587	hsa-miR-4465	CLIP-seq
MIRT1351588	hsa-miR-4473	CLIP-seq
MIRT1351589	hsa-miR-4509	CLIP-seq
MIRT1351590	hsa-miR-4529-3p	CLIP-seq
MIRT1351591	hsa-miR-466	CLIP-seq
MIRT1351592	hsa-miR-4666-5p	CLIP-seq
MIRT1351593	hsa-miR-4677-5p	CLIP-seq
MIRT1351594	hsa-miR-4699-3p	CLIP-seq
MIRT1351595	hsa-miR-4729	CLIP-seq
MIRT1351596	hsa-miR-4733-3p	CLIP-seq
MIRT1351597	hsa-miR-4744	CLIP-seq
MIRT1351598	hsa-miR-4782-3p	CLIP-seq
MIRT1351599	hsa-miR-4789-3p	CLIP-seq
MIRT1351600	hsa-miR-4799-5p	CLIP-seq
MIRT1351601	hsa-miR-4802-3p	CLIP-seq
MIRT1351602	hsa-miR-490-5p	CLIP-seq
MIRT1351603	hsa-miR-496	CLIP-seq
MIRT1351604	hsa-miR-499-5p	CLIP-seq
MIRT1351605	hsa-miR-508-3p	CLIP-seq
MIRT1351606	hsa-miR-512-3p	CLIP-seq
MIRT1351607	hsa-miR-519a	CLIP-seq
MIRT1351608	hsa-miR-519b-3p	CLIP-seq
MIRT1351609	hsa-miR-519c-3p	CLIP-seq
MIRT1351610	hsa-miR-520f	CLIP-seq
MIRT1351611	hsa-miR-576-5p	CLIP-seq
MIRT1351612	hsa-miR-578	CLIP-seq
MIRT1351613	hsa-miR-583	CLIP-seq
MIRT1351614	hsa-miR-590-3p	CLIP-seq
MIRT1351615	hsa-miR-605	CLIP-seq
MIRT1351616	hsa-miR-618	CLIP-seq
MIRT1351617	hsa-miR-630	CLIP-seq
MIRT1351618	hsa-miR-720	CLIP-seq
MIRT1351619	hsa-miR-765	CLIP-seq
MIRT2104213	hsa-miR-132	CLIP-seq
MIRT2104214	hsa-miR-194	CLIP-seq
MIRT2104215	hsa-miR-212	CLIP-seq
MIRT1351567	hsa-miR-3120-3p	CLIP-seq
MIRT1351595	hsa-miR-4729	CLIP-seq
MIRT1351614	hsa-miR-590-3p	CLIP-seq
MIRT1351619	hsa-miR-765	CLIP-seq
MIRT1351556	hsa-miR-1269	CLIP-seq
MIRT1351557	hsa-miR-1269b	CLIP-seq
MIRT1351559	hsa-miR-1297	CLIP-seq
MIRT2104213	hsa-miR-132	CLIP-seq
MIRT1351560	hsa-miR-136	CLIP-seq
MIRT2104214	hsa-miR-194	CLIP-seq
MIRT1351561	hsa-miR-208a	CLIP-seq
MIRT1351562	hsa-miR-208b	CLIP-seq
MIRT2104215	hsa-miR-212	CLIP-seq
MIRT1351565	hsa-miR-26a	CLIP-seq
MIRT1351566	hsa-miR-26b	CLIP-seq
MIRT1351567	hsa-miR-3120-3p	CLIP-seq
MIRT2328383	hsa-miR-3622a-3p	CLIP-seq
MIRT2328384	hsa-miR-3622b-3p	CLIP-seq
MIRT1351573	hsa-miR-3667-5p	CLIP-seq
MIRT1351575	hsa-miR-3919	CLIP-seq
MIRT1351577	hsa-miR-410	CLIP-seq
MIRT2328385	hsa-miR-4291	CLIP-seq
MIRT2328386	hsa-miR-4310	CLIP-seq
MIRT1351584	hsa-miR-432	CLIP-seq
MIRT1351587	hsa-miR-4465	CLIP-seq
MIRT1351590	hsa-miR-4529-3p	CLIP-seq
MIRT2328387	hsa-miR-455-3p	CLIP-seq
MIRT1351591	hsa-miR-466	CLIP-seq
MIRT1351592	hsa-miR-4666-5p	CLIP-seq
MIRT1351594	hsa-miR-4699-3p	CLIP-seq
MIRT1351595	hsa-miR-4729	CLIP-seq
MIRT2328388	hsa-miR-4760-3p	CLIP-seq
MIRT1351599	hsa-miR-4789-3p	CLIP-seq
MIRT1351600	hsa-miR-4799-5p	CLIP-seq
MIRT1351601	hsa-miR-4802-3p	CLIP-seq
MIRT1351604	hsa-miR-499-5p	CLIP-seq
MIRT2328389	hsa-miR-556-5p	CLIP-seq
MIRT1351612	hsa-miR-578	CLIP-seq
MIRT1351614	hsa-miR-590-3p	CLIP-seq
MIRT2328390	hsa-miR-610	CLIP-seq
MIRT2328391	hsa-miR-7	CLIP-seq
MIRT1351618	hsa-miR-720	CLIP-seq
MIRT1351619	hsa-miR-765	CLIP-seq
MIRT2104213	hsa-miR-132	CLIP-seq
MIRT2104214	hsa-miR-194	CLIP-seq
MIRT2104215	hsa-miR-212	CLIP-seq
MIRT1351555	hsa-miR-1246	CLIP-seq
MIRT2104213	hsa-miR-132	CLIP-seq
MIRT2623083	hsa-miR-133a	CLIP-seq
MIRT2623084	hsa-miR-133b	CLIP-seq
MIRT2104215	hsa-miR-212	CLIP-seq
MIRT2623085	hsa-miR-3148	CLIP-seq
MIRT2623086	hsa-miR-3190	CLIP-seq
MIRT2328383	hsa-miR-3622a-3p	CLIP-seq
MIRT2328384	hsa-miR-3622b-3p	CLIP-seq
MIRT1351574	hsa-miR-3668	CLIP-seq
MIRT1351576	hsa-miR-3924	CLIP-seq
MIRT2623087	hsa-miR-4281	CLIP-seq
MIRT2623088	hsa-miR-4522	CLIP-seq
MIRT2328387	hsa-miR-455-3p	CLIP-seq
MIRT1351592	hsa-miR-4666-5p	CLIP-seq
MIRT2623089	hsa-miR-4699-5p	CLIP-seq
MIRT1351601	hsa-miR-4802-3p	CLIP-seq
MIRT1351602	hsa-miR-490-5p	CLIP-seq
MIRT2623090	hsa-miR-548aa	CLIP-seq
MIRT1351615	hsa-miR-605	CLIP-seq
MIRT1351555	hsa-miR-1246	CLIP-seq
MIRT2104213	hsa-miR-132	CLIP-seq
MIRT2623083	hsa-miR-133a	CLIP-seq
MIRT2623084	hsa-miR-133b	CLIP-seq
MIRT2104215	hsa-miR-212	CLIP-seq
MIRT2623085	hsa-miR-3148	CLIP-seq
MIRT2623086	hsa-miR-3190	CLIP-seq
MIRT2328383	hsa-miR-3622a-3p	CLIP-seq
MIRT2328384	hsa-miR-3622b-3p	CLIP-seq
MIRT2623087	hsa-miR-4281	CLIP-seq
MIRT2623088	hsa-miR-4522	CLIP-seq
MIRT2328387	hsa-miR-455-3p	CLIP-seq
MIRT1351592	hsa-miR-4666-5p	CLIP-seq
MIRT2623089	hsa-miR-4699-5p	CLIP-seq
MIRT1351601	hsa-miR-4802-3p	CLIP-seq
MIRT1351602	hsa-miR-490-5p	CLIP-seq
MIRT2623090	hsa-miR-548aa	CLIP-seq
MIRT1351615	hsa-miR-605	CLIP-seq

Transcription factors

Transcription factor	Regulation	Reference
UPF1	Unknown	25016523

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0003723	Function	RNA binding	HDA	22658674
GO:0003729	Function	MRNA binding	IBA	21873635
GO:0003729	Function	MRNA binding	IDA	16912046
GO:0005515	Function	Protein binding	IPI	15829567, 16086026, 18172165, 23286197, 23329046, 23804756
GO:0005634	Component	Nucleus	IDA	15829567
GO:0005654	Component	Nucleoplasm	IDA
GO:0005654	Component	Nucleoplasm	TAS
GO:0005730	Component	Nucleolus	IDA
GO:0005737	Component	Cytoplasm	IBA	21873635
GO:0005737	Component	Cytoplasm	IDA	15829567
GO:0005829	Component	Cytosol	IDA
GO:0005829	Component	Cytosol	TAS
GO:0006369	Process	Termination of RNA polymerase II transcription	TAS
GO:0006398	Process	MRNA 3'-end processing by stem-loop binding and cleavage	IBA	21873635
GO:0006398	Process	MRNA 3'-end processing by stem-loop binding and cleavage	ISS
GO:0006406	Process	MRNA export from nucleus	TAS
GO:0008334	Process	Histone mRNA metabolic process	TAS
GO:0042802	Function	Identical protein binding	IPI	23286197
GO:0051028	Process	MRNA transport	IBA	21873635
GO:0051028	Process	MRNA transport	IDA	19155325
GO:0071204	Component	Histone pre-mRNA 3'end processing complex	IBA	21873635
GO:0071204	Component	Histone pre-mRNA 3'end processing complex	ISS
GO:0071207	Function	Histone pre-mRNA stem-loop binding	IBA	21873635
GO:0071207	Function	Histone pre-mRNA stem-loop binding	ISS
GO:0071208	Function	Histone pre-mRNA DCP binding	ISS
GO:1990904	Component	Ribonucleoprotein complex	TAS	10825184

Other IDs

• MIM: 602422
• HGNC: 10904
• e!Ensembl: ENSG00000163950

Protein

• UniProt ID: Q14493
• Protein name: Histone RNA hairpin-binding protein (Histone stem-loop-binding protein)
• Protein function: RNA-binding protein involved in the histone pre-mRNA processing (PubMed:12588979, PubMed:19155325, PubMed:8957003, PubMed:9049306). Binds the stem-loop structure of replication-dependent histone pre-mRNAs and contributes to efficient 3'-end proc
• PDB: 2KJM, 4L8R, 4QOZ
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF15247	SLBP_RNA_bind	130 → 199	Histone RNA hairpin-binding protein RNA-binding domain	Family

• Sequence:

  MACRPRSPPRHQSRCDGDASPPSPARWSLGRKRRADGRRWRPEDAEEAEHRGAERRPESF
  TTPEGPKPRSRCSDWASAVEEDEMRTRVNKEMARYKRKLLINDFGRERKSSSGSSDSKES
  MSTVPADFETDESVLMRRQKQINYGKNTIAYDRYIKEVPRHLRQPGIHPKTPNKFKKYSR
  RSWDQQIKLWKVALHFWDPPAEEGCDLQEIHPVDLESAESSSEPQTSSQDDFDVYSGTPT
  KVRHMDSQVEDEFDLEACLTEPLRDFSAMS

• Sequence length: 270

Pathways

Reactome:

Transport of the SLBP Dependant Mature mRNA
RNA Polymerase II Transcription Termination
SLBP Dependent Processing of Replication-Dependent Histone Pre-mRNAs

Associated diseases

Causal
Disease name	Disease term	dbSNP ID	References
Congenital ocular coloboma	Congenital ocular coloboma (disorder)	rs587778875, rs587777249, rs767611891, rs2091986259, rs2091987023, rs2091988799	30695021
Optic atrophy	Optic Atrophy	rs121434508, rs267607017, rs80356524, rs80356525, rs879255560, rs104893753, rs80356529, rs397515360, rs104893620, rs199476104, rs199476112, rs199476118, rs398124298, rs770066665, rs398124299, rs61750185, rs672601379, rs727504060, rs786204830, rs794727804, rs199946797, rs863224127, rs863224131, rs863224134, rs863224906, rs372054380, rs886037828, rs764791523, rs145639028, rs1057519312, rs1064794257, rs1064794656, rs1064797303, rs774265764, rs760337383, rs1553784985, rs72653786, rs1555229948, rs1555119216, rs761743852, rs1553785338, rs1020764190, rs782581701, rs1560408865, rs761460379, rs773022324, rs782740998, rs1560327427, rs80356528, rs1734162973, rs1716524583, rs1057368575	30695021

Unknown
Disease name	Disease term	dbSNP ID	References
Knee osteoarthritis	Osteoarthritis, Knee		30664745
Osteoarthritis of hip	Osteoarthritis of hip		30664745
Retinal dysplasia	Retinal Dysplasia		30695021
Uveoretinal coloboma	Uveoretinal Coloboma		30695021