SCL13_ARATH
ID SCL13_ARATH Reviewed; 529 AA.
AC Q9M0M5; F4JNF6; O23566; Q8W584; Q9XE57;
DT 23-SEP-2008, integrated into UniProtKB/Swiss-Prot.
DT 31-MAY-2011, sequence version 2.
DT 03-AUG-2022, entry version 102.
DE RecName: Full=Scarecrow-like protein 13;
DE Short=AtSCL13;
DE AltName: Full=GRAS family protein 24;
DE Short=AtGRAS-24;
GN Name=SCL13; OrderedLocusNames=At4g17230; ORFNames=dl4650c, FCAALL.225;
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=9461215; DOI=10.1038/35140;
RA Bevan M., Bancroft I., Bent E., Love K., Goodman H.M., Dean C.,
RA Bergkamp R., Dirkse W., van Staveren M., Stiekema W., Drost L., Ridley P.,
RA Hudson S.-A., Patel K., Murphy G., Piffanelli P., Wedler H., Wedler E.,
RA Wambutt R., Weitzenegger T., Pohl T., Terryn N., Gielen J., Villarroel R.,
RA De Clercq R., van Montagu M., Lecharny A., Aubourg S., Gy I., Kreis M.,
RA Lao N., Kavanagh T., Hempel S., Kotter P., Entian K.-D., Rieger M.,
RA Schaefer M., Funk B., Mueller-Auer S., Silvey M., James R., Monfort A.,
RA Pons A., Puigdomenech P., Douka A., Voukelatou E., Milioni D.,
RA Hatzopoulos P., Piravandi E., Obermaier B., Hilbert H., Duesterhoeft A.,
RA Moores T., Jones J.D.G., Eneva T., Palme K., Benes V., Rechmann S.,
RA Ansorge W., Cooke R., Berger C., Delseny M., Voet M., Volckaert G.,
RA Mewes H.-W., Klosterman S., Schueller C., Chalwatzis N.;
RT "Analysis of 1.9 Mb of contiguous sequence from chromosome 4 of Arabidopsis
RT thaliana.";
RL Nature 391:485-488(1998).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617198; DOI=10.1038/47134;
RA Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T.,
RA Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B.,
RA Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M.,
RA de Simone V., Obermaier B., Mache R., Mueller M., Kreis M., Delseny M.,
RA Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D.,
RA Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J.,
RA Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B.,
RA Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J.,
RA Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R.,
RA Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M.,
RA Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P.,
RA Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S.,
RA Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C.,
RA Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J.,
RA Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S.,
RA Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A.,
RA Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M.,
RA Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M.,
RA Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D.,
RA Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E.,
RA Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S.,
RA Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R.,
RA Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M.,
RA Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E.,
RA Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P.,
RA Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K.,
RA Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K.,
RA de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K.,
RA Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M.,
RA Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G.,
RA Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K.,
RA Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K.,
RA Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W.,
RA Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H.,
RA Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B.,
RA Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J.,
RA Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K.,
RA O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N.,
RA Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A.,
RA Martienssen R., McCombie W.R.;
RT "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana.";
RL Nature 402:769-777(1999).
RN [3]
RP GENOME REANNOTATION, AND SEQUENCE REVISION.
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 [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [5]
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 [6]
RP NUCLEOTIDE SEQUENCE [MRNA] OF 249-529, AND TISSUE SPECIFICITY.
RX PubMed=10341448; DOI=10.1046/j.1365-313x.1999.00431.x;
RA Pysh L.D., Wysocka-Diller J.W., Camilleri C., Bouchez D., Benfey P.N.;
RT "The GRAS gene family in Arabidopsis: sequence characterization and basic
RT expression analysis of the SCARECROW-LIKE genes.";
RL Plant J. 18:111-119(1999).
RN [7]
RP FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE,
RP AND INDUCTION.
RX PubMed=16680434; DOI=10.1007/s00438-006-0123-y;
RA Torres-Galea P., Huang L.-F., Chua N.-H., Bolle C.;
RT "The GRAS protein SCL13 is a positive regulator of phytochrome-dependent
RT red light signaling, but can also modulate phytochrome A responses.";
RL Mol. Genet. Genomics 276:13-30(2006).
RN [8]
RP GENE FAMILY.
RX PubMed=15316287; DOI=10.1023/b:plan.0000038256.89809.57;
RA Tian C., Wan P., Sun S., Li J., Chen M.;
RT "Genome-wide analysis of the GRAS gene family in rice and Arabidopsis.";
RL Plant Mol. Biol. 54:519-532(2004).
RN [9]
RP GENE FAMILY, AND TISSUE SPECIFICITY.
RX PubMed=18500650; DOI=10.1007/s11103-008-9345-1;
RA Lee M.-H., Kim B., Song S.-K., Heo J.-O., Yu N.-I., Lee S.A., Kim M.,
RA Kim D.G., Sohn S.O., Lim C.E., Chang K.S., Lee M.M., Lim J.;
RT "Large-scale analysis of the GRAS gene family in Arabidopsis thaliana.";
RL Plant Mol. Biol. 67:659-670(2008).
CC -!- FUNCTION: Probable transcription factor that acts as a positive
CC regulator of continuous red light signals downstream of phytochrome B
CC (phyB). Required for the regulation of hypocotyl elongation during de-
CC etiolation. May be required to modulate phytochrome A (phyA) signal
CC transduction in a phyB-independent way. {ECO:0000269|PubMed:16680434}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000269|PubMed:16680434}. Nucleus
CC {ECO:0000269|PubMed:16680434}. Note=Mainly cytoplasmic.
CC -!- TISSUE SPECIFICITY: Expressed in roots, hypocotyls, cotyledons, shoot
CC apex, leaves, flowers and siliques. {ECO:0000269|PubMed:10341448,
CC ECO:0000269|PubMed:16680434, ECO:0000269|PubMed:18500650}.
CC -!- DEVELOPMENTAL STAGE: During development, higher expression levels are
CC detected in young rosette leaves, senescing leaves and petals and
CC sepals at flower stage 15. {ECO:0000269|PubMed:16680434}.
CC -!- INDUCTION: By osmotic and cold stresses, and UV-A/B.
CC {ECO:0000269|PubMed:16680434}.
CC -!- SIMILARITY: Belongs to the GRAS family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAD24411.1; Type=Erroneous termination; Note=Extended C-terminus.; Evidence={ECO:0000305};
CC Sequence=CAB10504.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=CAB10504.1; Type=Frameshift; Evidence={ECO:0000305};
CC Sequence=CAB78726.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=CAB78726.1; Type=Frameshift; Evidence={ECO:0000305};
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DR EMBL; Z97343; CAB10504.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AL161546; CAB78726.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002687; AEE83865.1; -; Genomic_DNA.
DR EMBL; AF419570; AAL31902.1; -; mRNA.
DR EMBL; BT001076; AAN46855.1; -; mRNA.
DR EMBL; AK226549; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AF036308; AAD24411.1; ALT_SEQ; mRNA.
DR PIR; C71441; C71441.
DR PIR; T51241; T51241.
DR RefSeq; NP_001328648.1; NM_001341195.1.
DR RefSeq; NP_193456.4; NM_117828.8.
DR AlphaFoldDB; Q9M0M5; -.
DR SMR; Q9M0M5; -.
DR BioGRID; 12728; 2.
DR STRING; 3702.AT4G17230.1; -.
DR PaxDb; Q9M0M5; -.
DR PRIDE; Q9M0M5; -.
DR ProteomicsDB; 232909; -.
DR GeneID; 827435; -.
DR KEGG; ath:AT4G17230; -.
DR Araport; AT4G17230; -.
DR eggNOG; ENOG502QS02; Eukaryota.
DR HOGENOM; CLU_011924_6_0_1; -.
DR InParanoid; Q9M0M5; -.
DR OrthoDB; 445468at2759; -.
DR PRO; PR:Q9M0M5; -.
DR Proteomes; UP000006548; Chromosome 4.
DR ExpressionAtlas; Q9M0M5; baseline and differential.
DR Genevisible; Q9M0M5; AT.
DR GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; IBA:GO_Central.
DR GO; GO:0043565; F:sequence-specific DNA binding; IBA:GO_Central.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IBA:GO_Central.
DR InterPro; IPR030005; Scarecrow-like_13.
DR InterPro; IPR005202; TF_GRAS.
DR PANTHER; PTHR31636; PTHR31636; 1.
DR PANTHER; PTHR31636:SF266; PTHR31636:SF266; 1.
DR Pfam; PF03514; GRAS; 1.
DR PROSITE; PS50985; GRAS; 1.
PE 2: Evidence at transcript level;
KW Cytoplasm; Nucleus; Reference proteome; Transcription;
KW Transcription regulation.
FT CHAIN 1..529
FT /note="Scarecrow-like protein 13"
FT /id="PRO_0000350855"
FT DOMAIN 146..525
FT /note="GRAS"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01191"
FT REGION 51..84
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 153..213
FT /note="Leucine repeat I (LRI)"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01191"
FT REGION 232..297
FT /note="VHIID"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01191"
FT REGION 313..345
FT /note="Leucine repeat II (LRII)"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01191"
FT REGION 354..448
FT /note="PFYRE"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01191"
FT REGION 451..525
FT /note="SAW"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01191"
FT MOTIF 263..267
FT /note="VHIID"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01191"
FT CONFLICT 69
FT /note="R -> Q (in Ref. 4; AAL31902/AAN46855)"
FT /evidence="ECO:0000305"
FT CONFLICT 374..375
FT /note="NH -> KY (in Ref. 6; AAD24411)"
FT /evidence="ECO:0000305"
FT CONFLICT 405..406
FT /note="FL -> LV (in Ref. 6; AAD24411)"
FT /evidence="ECO:0000305"
FT CONFLICT 466
FT /note="K -> I (in Ref. 3; AEE83865)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 529 AA; 58470 MW; DB71059479C7954E CRC64;
MQTSQKHHSA AGLHMLYPQV YCSPQFQAKD NKGFSDIPSK ENFFTLESST ASGSLPSYDS
PSVSITSGRS PFSPQGSQSC ISDLHHSPDN VYGSPLSGVS SLAYDEAGVK SKIRELEVSL
LSGDTKVEEF SGFSPAAGKS WNWDELLALT PQLDLKEVLV EAARAVADGD FATAYGFLDV
LEQMVSVSGS PIQRLGTYMA EGLRARLEGS GSNIYKSLKC NEPTGRELMS YMSVLYEICP
YWKFAYTTAN VEILEAIAGE TRVHIIDFQI AQGSQYMFLI QELAKRPGGP PLLRVTGVDD
SQSTYARGGG LSLVGERLAT LAQSCGVPFE FHDAIMSGCK VQREHLGLEP GFAVVVNFPY
VLHHMPDESV SVENHRDRLL HLIKSLSPKL VTLVEQESNT NTSPFLSRFV ETLDYYTAMF
ESIDAARPRD DKQRISAEQH CVARDIVNMI ACEESERVER HEVLGKWRVR MMMAGFTGWP
VSTSAAFAAS EMLKAYDKNY KLGGHEGALY LFWKRRPMAT CSVWKPNPN
