SPT41_ARATH
ID SPT41_ARATH Reviewed; 116 AA.
AC Q8LCQ3; Q29PX1;
DT 22-NOV-2005, integrated into UniProtKB/Swiss-Prot.
DT 05-FEB-2008, sequence version 3.
DT 03-AUG-2022, entry version 123.
DE RecName: Full=Transcription elongation factor SPT4 homolog 1;
GN OrderedLocusNames=At5g08565; ORFNames=MAH20.24;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=9405937; DOI=10.1093/dnares/4.4.291;
RA Kotani H., Nakamura Y., Sato S., Kaneko T., Asamizu E., Miyajima N.,
RA Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 5. II. Sequence
RT features of the regions of 1,044,062 bp covered by thirteen physically
RT assigned P1 clones.";
RL DNA Res. 4:291-300(1997).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RA Kim C.J., Chen H., Shinn P., Ecker J.R.;
RT "Arabidopsis ORF clones.";
RL Submitted (MAR-2006) to the EMBL/GenBank/DDBJ databases.
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RA Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A.,
RA Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y.,
RA Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.,
RA Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y.,
RA Shinozaki K.;
RT "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs.";
RL Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases.
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RA Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B.,
RA Feldmann K.A.;
RT "Full-length cDNA from Arabidopsis thaliana.";
RL Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases.
CC -!- FUNCTION: May regulate transcription elongation by RNA polymerase II.
CC May enhance transcriptional pausing at sites proximal to the promoter,
CC which may in turn facilitate the assembly of an elongation competent
CC RNA polymerase II complex (By similarity). {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=1;
CC Comment=A number of isoforms are produced. According to EST
CC sequences.;
CC Name=1;
CC IsoId=Q8LCQ3-1; Sequence=Displayed;
CC -!- SIMILARITY: Belongs to the SPT4 family. {ECO:0000305}.
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DR EMBL; AB006697; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; CP002688; AED91322.1; -; Genomic_DNA.
DR EMBL; BT024785; ABD59123.1; -; mRNA.
DR EMBL; AK228575; BAF00493.1; -; mRNA.
DR EMBL; AY086462; AAM63465.1; -; mRNA.
DR RefSeq; NP_568201.1; NM_120943.4. [Q8LCQ3-1]
DR AlphaFoldDB; Q8LCQ3; -.
DR SMR; Q8LCQ3; -.
DR BioGRID; 16035; 3.
DR PaxDb; Q8LCQ3; -.
DR PRIDE; Q8LCQ3; -.
DR ProteomicsDB; 232552; -. [Q8LCQ3-1]
DR EnsemblPlants; AT5G08565.1; AT5G08565.1; AT5G08565. [Q8LCQ3-1]
DR GeneID; 830757; -.
DR Gramene; AT5G08565.1; AT5G08565.1; AT5G08565. [Q8LCQ3-1]
DR KEGG; ath:AT5G08565; -.
DR Araport; AT5G08565; -.
DR TAIR; locus:505006588; AT5G08565.
DR HOGENOM; CLU_138052_0_0_1; -.
DR InParanoid; Q8LCQ3; -.
DR OMA; TPNFNGM; -.
DR PhylomeDB; Q8LCQ3; -.
DR PRO; PR:Q8LCQ3; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; Q8LCQ3; baseline and differential.
DR Genevisible; Q8LCQ3; AT.
DR GO; GO:0032044; C:DSIF complex; IBA:GO_Central.
DR GO; GO:0000993; F:RNA polymerase II complex binding; IBA:GO_Central.
DR GO; GO:0008270; F:zinc ion binding; IEA:InterPro.
DR GO; GO:0006325; P:chromatin organization; IBA:GO_Central.
DR GO; GO:0006397; P:mRNA processing; IBA:GO_Central.
DR GO; GO:0032786; P:positive regulation of DNA-templated transcription, elongation; IEA:InterPro.
DR GO; GO:0034243; P:regulation of transcription elongation from RNA polymerase II promoter; IBA:GO_Central.
DR CDD; cd07973; Spt4; 1.
DR Gene3D; 3.30.40.210; -; 1.
DR InterPro; IPR029040; RPABC4/Spt4.
DR InterPro; IPR009287; Spt4.
DR InterPro; IPR022800; Spt4/RpoE2_Znf.
DR InterPro; IPR038510; Spt4_sf.
DR PANTHER; PTHR12882; PTHR12882; 1.
DR Pfam; PF06093; Spt4; 1.
DR PIRSF; PIRSF025023; Spt4; 1.
DR SMART; SM01389; Spt4; 1.
DR SUPFAM; SSF63393; SSF63393; 1.
PE 3: Inferred from homology;
KW Activator; Alternative splicing; Metal-binding; Nucleus;
KW Reference proteome; Repressor; Transcription; Transcription regulation;
KW Zinc; Zinc-finger.
FT CHAIN 1..116
FT /note="Transcription elongation factor SPT4 homolog 1"
FT /id="PRO_0000210335"
FT ZN_FING 19..39
FT /note="C4-type"
FT /evidence="ECO:0000255"
FT CONFLICT 60
FT /note="N -> D (in Ref. 5; AAM63465)"
FT /evidence="ECO:0000305"
FT CONFLICT 94
FT /note="A -> T (in Ref. 5; AAM63465)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 116 AA; 13369 MW; 97EF704E460FE7B3 CRC64;
MGEAPAQIPT SFGHELRACL RCRLVKTYDQ FRDSGCENCP FFKIEDDHER IVDVTTPNFN
GIISMMDPRR SWAARWLRIG KFAPGCYTLA VSEALPEEMQ FICQQARVQY VPPKRI
