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A1A546

- ISX_MOUSE

UniProt

A1A546 - ISX_MOUSE

Protein

Intestine-specific homeobox

Gene

Isx

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 72 (01 Oct 2014)
      Sequence version 2 (06 Feb 2007)
      Previous versions | rss
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    Functioni

    Transcription factor that regulates gene expression in intestine. May participate in vitamin A metabolism most likely by regulating BCMO1 expression in the intestine.2 Publications

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi78 – 13760HomeoboxPROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. sequence-specific DNA binding Source: InterPro
    2. sequence-specific DNA binding transcription factor activity Source: InterPro

    GO - Biological processi

    1. regulation of transcription from RNA polymerase II promoter Source: MGI
    2. regulation of vitamin A metabolic process Source: MGI
    3. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Activator

    Keywords - Biological processi

    Transcription, Transcription regulation

    Keywords - Ligandi

    DNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Intestine-specific homeobox
    Gene namesi
    Name:Isx
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 8

    Organism-specific databases

    MGIiMGI:1918847. Isx.

    Subcellular locationi

    Nucleus PROSITE-ProRule annotation

    GO - Cellular componenti

    1. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Disruption phenotypei

    Mice appear healthy for at least 1 year and display normal histological features in the gut. They however show defects in intestinal gene expression with a dysregulation of the scavenger receptor Scarb1.1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 240240Intestine-specific homeoboxPRO_0000288603Add
    BLAST

    Proteomic databases

    PRIDEiA1A546.

    PTM databases

    PhosphoSiteiA1A546.

    Expressioni

    Tissue specificityi

    Expressed in intestinal epithelial cells from the duodenum to the proximal colon.2 Publications

    Developmental stagei

    Appears late in development, just before the villus transition in intestine morphogenesis. Restricted to the epithelial compartment in both adult and fetal intestine.1 Publication

    Gene expression databases

    BgeeiA1A546.
    CleanExiMM_ISX.
    GenevestigatoriA1A546.

    Interactioni

    Protein-protein interaction databases

    STRINGi10090.ENSMUSP00000034034.

    Structurei

    3D structure databases

    ProteinModelPortaliA1A546.
    SMRiA1A546. Positions 79-138.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Contains 1 homeobox DNA-binding domain.PROSITE-ProRule annotation

    Keywords - Domaini

    Homeobox

    Phylogenomic databases

    eggNOGiNOG252360.
    GeneTreeiENSGT00750000117349.
    HOGENOMiHOG000052524.
    HOVERGENiHBG096596.
    InParanoidiA1A546.
    OMAiGYCEAPE.
    OrthoDBiEOG7MSMQF.
    PhylomeDBiA1A546.
    TreeFamiTF315976.

    Family and domain databases

    Gene3Di1.10.10.60. 1 hit.
    InterProiIPR017970. Homeobox_CS.
    IPR001356. Homeobox_dom.
    IPR009057. Homeodomain-like.
    [Graphical view]
    PfamiPF00046. Homeobox. 1 hit.
    [Graphical view]
    SMARTiSM00389. HOX. 1 hit.
    [Graphical view]
    SUPFAMiSSF46689. SSF46689. 1 hit.
    PROSITEiPS00027. HOMEOBOX_1. 1 hit.
    PS50071. HOMEOBOX_2. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: A1A546-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MAGPTIHRDM EKSSGYCEAP ENLGLSFSIE AILKKPTERR SLPRPQSICK    50
    EDSRQTTIPG SKLERPPQDQ PQEEKKNKRR VRTTFTTEQL QELEKLFHFT 100
    HYPDIHVRSQ LASRINLPEA RVQIWFQNQR AKWRKQEKSG NLSAPQQPGE 150
    AGLALPSNMD VSGPVLTPTA MTTLVPPTEC CLLSQTQLPS SWFPTQIPLV 200
    PWHPWDLQPL PGPLTQHPCV PTFMFPPLHP KWGSICATST 240
    Length:240
    Mass (Da):27,169
    Last modified:February 6, 2007 - v2
    Checksum:iC7BFA37A5950FA1B
    GO
    Isoform 2 (identifier: A1A546-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         150-240: EAGLALPSNM...KWGSICATST → SCADTHCYDY...LSKQATLLSQ

    Note: No experimental confirmation available.

    Show »
    Length:242
    Mass (Da):27,344
    Checksum:i94AB50ADCACC7EF3
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti176 – 1761P → L in BAB31309. (PubMed:16141072)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei150 – 24091EAGLA…CATST → SCADTHCYDYIGTSHRMLPT LSDSAPFKLVPYTDSPCPMA PMGPTAPAWPSHPASLCPYL HVPTPTPQVGQHLCNFNIGT DFSLSKQATLLSQ in isoform 2. 1 PublicationVSP_025717Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK018615 mRNA. Translation: BAB31309.1.
    BC128289 mRNA. Translation: AAI28290.2.
    BC128290 mRNA. Translation: AAI28291.2.
    CCDSiCCDS40391.1. [A1A546-1]
    RefSeqiNP_082113.2. NM_027837.3. [A1A546-1]
    XP_006531433.1. XM_006531370.1. [A1A546-2]
    UniGeneiMm.158735.

    Genome annotation databases

    EnsembliENSMUST00000034034; ENSMUSP00000034034; ENSMUSG00000031621. [A1A546-1]
    ENSMUST00000174427; ENSMUSP00000134368; ENSMUSG00000031621. [A1A546-2]
    GeneIDi71597.
    KEGGimmu:71597.
    UCSCiuc009mgv.1. mouse. [A1A546-1]
    uc012ggb.1. mouse. [A1A546-2]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK018615 mRNA. Translation: BAB31309.1 .
    BC128289 mRNA. Translation: AAI28290.2 .
    BC128290 mRNA. Translation: AAI28291.2 .
    CCDSi CCDS40391.1. [A1A546-1 ]
    RefSeqi NP_082113.2. NM_027837.3. [A1A546-1 ]
    XP_006531433.1. XM_006531370.1. [A1A546-2 ]
    UniGenei Mm.158735.

    3D structure databases

    ProteinModelPortali A1A546.
    SMRi A1A546. Positions 79-138.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 10090.ENSMUSP00000034034.

    PTM databases

    PhosphoSitei A1A546.

    Proteomic databases

    PRIDEi A1A546.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000034034 ; ENSMUSP00000034034 ; ENSMUSG00000031621 . [A1A546-1 ]
    ENSMUST00000174427 ; ENSMUSP00000134368 ; ENSMUSG00000031621 . [A1A546-2 ]
    GeneIDi 71597.
    KEGGi mmu:71597.
    UCSCi uc009mgv.1. mouse. [A1A546-1 ]
    uc012ggb.1. mouse. [A1A546-2 ]

    Organism-specific databases

    CTDi 91464.
    MGIi MGI:1918847. Isx.

    Phylogenomic databases

    eggNOGi NOG252360.
    GeneTreei ENSGT00750000117349.
    HOGENOMi HOG000052524.
    HOVERGENi HBG096596.
    InParanoidi A1A546.
    OMAi GYCEAPE.
    OrthoDBi EOG7MSMQF.
    PhylomeDBi A1A546.
    TreeFami TF315976.

    Miscellaneous databases

    NextBioi 334069.
    PROi A1A546.
    SOURCEi Search...

    Gene expression databases

    Bgeei A1A546.
    CleanExi MM_ISX.
    Genevestigatori A1A546.

    Family and domain databases

    Gene3Di 1.10.10.60. 1 hit.
    InterProi IPR017970. Homeobox_CS.
    IPR001356. Homeobox_dom.
    IPR009057. Homeodomain-like.
    [Graphical view ]
    Pfami PF00046. Homeobox. 1 hit.
    [Graphical view ]
    SMARTi SM00389. HOX. 1 hit.
    [Graphical view ]
    SUPFAMi SSF46689. SSF46689. 1 hit.
    PROSITEi PS00027. HOMEOBOX_1. 1 hit.
    PS50071. HOMEOBOX_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The transcriptional landscape of the mammalian genome."
      Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
      , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
      Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Strain: C57BL/6J.
      Tissue: Cecum.
    2. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
    3. "A dynamic expression survey identifies transcription factors relevant in mouse digestive tract development."
      Choi M.Y., Romer A.I., Hu M., Lepourcelet M., Mechoor A., Yesilaltay A., Krieger M., Gray P.A., Shivdasani R.A.
      Development 133:4119-4129(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, DISRUPTION PHENOTYPE.
    4. "Isx participates in the maintenance of vitamin A metabolism by regulation of beta-carotene 15,15'-monooxygenase (Bcmo1) expression."
      Seino Y., Miki T., Kiyonari H., Abe T., Fujimoto W., Kimura K., Takeuchi A., Takahashi Y., Oiso Y., Iwanaga T., Seino S.
      J. Biol. Chem. 283:4905-4911(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, TISSUE SPECIFICITY.

    Entry informationi

    Entry nameiISX_MOUSE
    AccessioniPrimary (citable) accession number: A1A546
    Secondary accession number(s): A1A545, Q9D2Z0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 29, 2007
    Last sequence update: February 6, 2007
    Last modified: October 1, 2014
    This is version 72 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3