ID IRX1_MOUSE Reviewed; 480 AA.
AC P81068; G5E8H6; O55120; Q3UZB9; Q9JLL6;
DT 15-JUL-1998, integrated into UniProtKB/Swiss-Prot.
DT 03-OCT-2012, sequence version 4.
DT 27-MAR-2024, entry version 157.
DE RecName: Full=Iroquois-class homeodomain protein IRX-1;
DE AltName: Full=Homeodomain protein IRXA1;
DE AltName: Full=Iroquois homeobox protein 1;
GN Name=Irx1; Synonyms=Irxa1;
OS Mus musculus (Mouse).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC Murinae; Mus; Mus.
OX NCBI_TaxID=10090;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA], AND DEVELOPMENTAL STAGE.
RC STRAIN=FVB/N; TISSUE=Embryonic heart;
RX PubMed=10926765; DOI=10.1006/dbio.2000.9801;
RA Christoffels V.M., Keijser A.G.M., Houweling A.C., Clout D.E.W.,
RA Moorman A.F.M.;
RT "Patterning the embryonic heart: identification of five mouse Iroquois
RT homeobox genes in the developing heart.";
RL Dev. Biol. 224:263-274(2000).
RN [2]
RP NUCLEOTIDE SEQUENCE [MRNA], AND DEVELOPMENTAL STAGE.
RC TISSUE=Brain;
RX PubMed=10704856; DOI=10.1016/s0925-4773(99)00263-4;
RA Cohen D.R., Cheng C.W., Cheng S.H., Hui C.-C.;
RT "Expression of two novel mouse Iroquois-class homeobox genes during
RT neurogenesis.";
RL Mech. Dev. 91:317-321(2000).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=C57BL/6J; TISSUE=Embryo;
RX PubMed=16141072; DOI=10.1126/science.1112014;
RA Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N.,
RA Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K.,
RA Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.,
RA Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R.,
RA Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T.,
RA Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A.,
RA Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B.,
RA Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M.,
RA Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S.,
RA Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E.,
RA Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D.,
RA Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M.,
RA Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H.,
RA Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V.,
RA Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S.,
RA Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H.,
RA Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N.,
RA Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F.,
RA Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G.,
RA Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z.,
RA Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C.,
RA Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y.,
RA Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S.,
RA Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K.,
RA Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R.,
RA van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H.,
RA Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M.,
RA Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C.,
RA Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S.,
RA Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K.,
RA Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M.,
RA Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C.,
RA Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A.,
RA Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.;
RT "The transcriptional landscape of the mammalian genome.";
RL Science 309:1559-1563(2005).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=C57BL/6J;
RX PubMed=19468303; DOI=10.1371/journal.pbio.1000112;
RA Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X.,
RA Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y.,
RA Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S.,
RA Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R.,
RA Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K.,
RA Eichler E.E., Ponting C.P.;
RT "Lineage-specific biology revealed by a finished genome assembly of the
RT mouse.";
RL PLoS Biol. 7:E1000112-E1000112(2009).
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RA Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.;
RL Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases.
RN [6]
RP NUCLEOTIDE SEQUENCE [MRNA] OF 125-198, AND DEVELOPMENTAL STAGE.
RX PubMed=9486539; DOI=10.1016/s0925-4773(97)00165-2;
RA Bosse A., Zulch A., Becker M.B., Torres M., Gomez-Skarmeta J.-L.,
RA Modolell J., Gruss P.;
RT "Identification of the vertebrate Iroquois homeobox gene family with
RT overlapping expression during early development of the nervous system.";
RL Mech. Dev. 69:169-181(1997).
RN [7]
RP TISSUE SPECIFICITY.
RX PubMed=17875669; DOI=10.1101/gad.450707;
RA Reggiani L., Raciti D., Airik R., Kispert A., Braendli A.W.;
RT "The prepattern transcription factor Irx3 directs nephron segment
RT identity.";
RL Genes Dev. 21:2358-2370(2007).
RN [8]
RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-241, AND IDENTIFICATION BY
RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC TISSUE=Kidney, and Lung;
RX PubMed=21183079; DOI=10.1016/j.cell.2010.12.001;
RA Huttlin E.L., Jedrychowski M.P., Elias J.E., Goswami T., Rad R.,
RA Beausoleil S.A., Villen J., Haas W., Sowa M.E., Gygi S.P.;
RT "A tissue-specific atlas of mouse protein phosphorylation and expression.";
RL Cell 143:1174-1189(2010).
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
CC -!- TISSUE SPECIFICITY: Expressed in specific and overlapping patterns with
CC Irx1 and Irx2 in the developing and adult metanephric kidney. In the
CC adult metanephros, renal expression is found in the loop of Henle in
CC the S3 proximal tubule segment and in the thick ascending limb (TAL) of
CC the distal tubule. {ECO:0000269|PubMed:17875669}.
CC -!- DEVELOPMENTAL STAGE: First detected in the mesoderm at stage 7.5 dpc.
CC During neurogenesis (9.5 dpc to 10.5 dpc), predominantly expressed
CC along the anteroposterior axis of the CNS in the mesencephalon,
CC metencephalon, rhombencephalon and spinal cord, with expression
CC excluded from the midbrain-hindbrain junction. Beginning at 9.5 dpc,
CC expression is found in the epithelial component of the branchial arches
CC and foregut. At later stages, expressed in somites. At 10.5 dpc,
CC expressed in the cephalic mesenchyme surrounding the optic vesicle. By
CC 12.5 dpc, expression remains in the mesenchyme and also begins in the
CC neuroretina, and at 16.5 dpc expression is exclusively located in the
CC inner neuroblast layers of the neuroretina. Starting at the otic
CC vesicle stage, shows regionalized expression in the developing inner
CC ear with expression in the entire otic vesicle from 10.5 dpc onwards.
CC Expressed in distinct patterns in the developing limb buds from 10.5
CC dpc onwards. Expressed in the developing heart in the ventricular
CC septum from the onset of its formation (10.5 dpc) onward. In fetal
CC stages, expression becomes confined to the myocardium of the
CC atrioventricular bundle and bundle branches of the forming ventricular
CC conduction system. {ECO:0000269|PubMed:10704856,
CC ECO:0000269|PubMed:10926765, ECO:0000269|PubMed:9486539}.
CC -!- SIMILARITY: Belongs to the TALE/IRO homeobox family. {ECO:0000305}.
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DR EMBL; AF165984; AAF63954.1; -; mRNA.
DR EMBL; AK133937; BAE21938.1; -; mRNA.
DR EMBL; CT009684; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; CH466563; EDL37041.1; -; Genomic_DNA.
DR EMBL; Y15002; CAA75234.1; -; mRNA.
DR CCDS; CCDS26627.1; -.
DR RefSeq; NP_034703.2; NM_010573.2.
DR AlphaFoldDB; P81068; -.
DR SMR; P81068; -.
DR BioGRID; 200792; 2.
DR STRING; 10090.ENSMUSP00000076562; -.
DR iPTMnet; P81068; -.
DR PhosphoSitePlus; P81068; -.
DR PaxDb; 10090-ENSMUSP00000076562; -.
DR PeptideAtlas; P81068; -.
DR ProteomicsDB; 301670; -.
DR Antibodypedia; 9131; 214 antibodies from 31 providers.
DR DNASU; 16371; -.
DR Ensembl; ENSMUST00000077337.9; ENSMUSP00000076562.9; ENSMUSG00000060969.10.
DR GeneID; 16371; -.
DR KEGG; mmu:16371; -.
DR UCSC; uc007rdd.1; mouse.
DR AGR; MGI:1197515; -.
DR CTD; 79192; -.
DR MGI; MGI:1197515; Irx1.
DR VEuPathDB; HostDB:ENSMUSG00000060969; -.
DR eggNOG; KOG0773; Eukaryota.
DR GeneTree; ENSGT00940000160429; -.
DR HOGENOM; CLU_042927_0_0_1; -.
DR InParanoid; P81068; -.
DR OMA; QVNHTST; -.
DR OrthoDB; 2915644at2759; -.
DR PhylomeDB; P81068; -.
DR TreeFam; TF319371; -.
DR BioGRID-ORCS; 16371; 4 hits in 78 CRISPR screens.
DR ChiTaRS; Irx1; mouse.
DR PRO; PR:P81068; -.
DR Proteomes; UP000000589; Chromosome 13.
DR RNAct; P81068; Protein.
DR Bgee; ENSMUSG00000060969; Expressed in cerebellum ventricular layer and 222 other cell types or tissues.
DR ExpressionAtlas; P81068; baseline and differential.
DR Genevisible; P81068; MM.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IBA:GO_Central.
DR GO; GO:0001227; F:DNA-binding transcription repressor activity, RNA polymerase II-specific; ISO:MGI.
DR GO; GO:0000978; F:RNA polymerase II cis-regulatory region sequence-specific DNA binding; IBA:GO_Central.
DR GO; GO:0043565; F:sequence-specific DNA binding; ISO:MGI.
DR GO; GO:1990837; F:sequence-specific double-stranded DNA binding; ISO:MGI.
DR GO; GO:0048468; P:cell development; IBA:GO_Central.
DR GO; GO:0001656; P:metanephros development; IEP:UniProtKB.
DR GO; GO:0000122; P:negative regulation of transcription by RNA polymerase II; ISO:MGI.
DR GO; GO:0030182; P:neuron differentiation; IBA:GO_Central.
DR GO; GO:0010628; P:positive regulation of gene expression; ISO:MGI.
DR GO; GO:0072272; P:proximal/distal pattern formation involved in metanephric nephron development; IEP:UniProtKB.
DR GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0014070; P:response to organic cyclic compound; ISO:MGI.
DR GO; GO:0072086; P:specification of loop of Henle identity; IEP:UniProtKB.
DR CDD; cd00086; homeodomain; 1.
DR Gene3D; 1.10.10.60; Homeodomain-like; 1.
DR InterPro; IPR009057; Homeobox-like_sf.
DR InterPro; IPR017970; Homeobox_CS.
DR InterPro; IPR001356; Homeobox_dom.
DR InterPro; IPR008422; Homeobox_KN_domain.
DR InterPro; IPR003893; Iroquois_homeo.
DR PANTHER; PTHR11211; IROQUOIS-CLASS HOMEODOMAIN PROTEIN IRX; 1.
DR PANTHER; PTHR11211:SF13; IROQUOIS-CLASS HOMEODOMAIN PROTEIN IRX-1; 1.
DR Pfam; PF05920; Homeobox_KN; 1.
DR SMART; SM00389; HOX; 1.
DR SMART; SM00548; IRO; 1.
DR SUPFAM; SSF46689; Homeodomain-like; 1.
DR PROSITE; PS00027; HOMEOBOX_1; 1.
DR PROSITE; PS50071; HOMEOBOX_2; 1.
PE 1: Evidence at protein level;
KW DNA-binding; Homeobox; Nucleus; Phosphoprotein; Reference proteome.
FT CHAIN 1..480
FT /note="Iroquois-class homeodomain protein IRX-1"
FT /id="PRO_0000049152"
FT DNA_BIND 127..189
FT /note="Homeobox; TALE-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT REGION 190..285
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 318..354
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 401..480
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 190..212
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 213..245
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 263..277
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 403..417
FT /note="Pro residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 447..464
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 241
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:21183079"
FT CONFLICT 73
FT /note="A -> G (in Ref. 3; BAE21938)"
FT /evidence="ECO:0000305"
FT CONFLICT 197
FT /note="S -> T (in Ref. 1; AAF63954)"
FT /evidence="ECO:0000305"
FT CONFLICT 257
FT /note="A -> R (in Ref. 1; AAF63954)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 480 AA; 50169 MW; 38D141E4C127A6C1 CRC64;
MSFPQLGYPQ YLSAAGPGAY GGERPGVLAA AAAAAAAASS GRPGTAELGA GAGAAAVTSV
LGMYAAAGPY AGAPNYSAFL PYAADLSLFS QMGSQYELKD NPGVHPATFA AHTTPAYYPY
GQFQYGDPGR PKNATRESTS TLKAWLNEHR KNPYPTKGEK IMLAIITKMT LTQVSTWFAN
ARRRLKKENK VTWGARSKDQ EDGALFGSDT EGDPEKAEDD EEIDLESIDI DQIDERDGDQ
SNEDEEDKAE APRARVAPPA SARDQSSPLS AAETLKSQDS PLGLVKEVSE PGSTRLLSPG
AAAVGLQGAP HSKPKIWSLA ETATSPDGAP KASPPPPSSH ASAHGPPSGS PLQHPAFLPS
HGLYTCHIGK FSNWTNGAFL AQGSLLNMRS FLGVSAPHAA PHGPHLTAPP PPQPPVQVAT
GVLHGEKASA RSSPALPERD LVTRPDSPPQ QLKSPFQPVR DNSLAPQEGT PRILAALPSA
//
