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Protein

Intestine-specific homeobox

Gene

Isx

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Transcription factor that regulates gene expression in intestine. May participate in vitamin A metabolism most likely by regulating BCO1 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

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
Complete GO annotation...

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 Componenti: Chromosome 8

Organism-specific databases

MGIiMGI:1918847. Isx.

Subcellular locationi

Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

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.
ExpressionAtlasiA1A546. differential.
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.
GeneTreeiENSGT00760000118958.
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. AlignAdd to basket

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

        10         20         30         40         50
MAGPTIHRDM EKSSGYCEAP ENLGLSFSIE AILKKPTERR SLPRPQSICK
60 70 80 90 100
EDSRQTTIPG SKLERPPQDQ PQEEKKNKRR VRTTFTTEQL QELEKLFHFT
110 120 130 140 150
HYPDIHVRSQ LASRINLPEA RVQIWFQNQR AKWRKQEKSG NLSAPQQPGE
160 170 180 190 200
AGLALPSNMD VSGPVLTPTA MTTLVPPTEC CLLSQTQLPS SWFPTQIPLV
210 220 230 240
PWHPWDLQPL PGPLTQHPCV PTFMFPPLHP KWGSICATST
Length:240
Mass (Da):27,169
Last modified:February 5, 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:
EMBLi
GenBanki
DDBJi
Links Updated
AK018615 mRNA. Translation: BAB31309.1.
BC128289 mRNA. Translation: AAI28290.2.
BC128290 mRNA. Translation: AAI28291.2.
CCDSiCCDS40391.1. [A1A546-1]
RefSeqiNP_001281207.1. NM_001294278.1. [A1A546-2]
NP_082113.2. NM_027837.3. [A1A546-1]
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:
EMBLi
GenBanki
DDBJi
Links Updated
AK018615 mRNA. Translation: BAB31309.1.
BC128289 mRNA. Translation: AAI28290.2.
BC128290 mRNA. Translation: AAI28291.2.
CCDSiCCDS40391.1. [A1A546-1]
RefSeqiNP_001281207.1. NM_001294278.1. [A1A546-2]
NP_082113.2. NM_027837.3. [A1A546-1]
UniGeneiMm.158735.

3D structure databases

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

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000034034.

PTM databases

PhosphoSiteiA1A546.

Proteomic databases

PRIDEiA1A546.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

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]

Organism-specific databases

CTDi91464.
MGIiMGI:1918847. Isx.

Phylogenomic databases

eggNOGiNOG252360.
GeneTreeiENSGT00760000118958.
HOGENOMiHOG000052524.
HOVERGENiHBG096596.
InParanoidiA1A546.
OMAiGYCEAPE.
OrthoDBiEOG7MSMQF.
PhylomeDBiA1A546.
TreeFamiTF315976.

Miscellaneous databases

NextBioi334069.
PROiA1A546.
SOURCEiSearch...

Gene expression databases

BgeeiA1A546.
CleanExiMM_ISX.
ExpressionAtlasiA1A546. differential.
GenevestigatoriA1A546.

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]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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(2004) [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(2003) [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(2005) [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(2007) [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 28, 2007
Last sequence update: February 5, 2007
Last modified: March 3, 2015
This is version 75 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.