A1A546 (ISX_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Intestine-specific homeobox

Gene names

Name:

Isx

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	240 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	Transcription factor that regulates gene expression in intestine. May participate in vitamin A metabolism most likely by regulating BCMO1 expression in the intestine. Ref.3 Ref.4
Subcellular location	Nucleus By similarity.
Tissue specificity	Expressed in intestinal epithelial cells from the duodenum to the proximal colon. Ref.3 Ref.4
Developmental stage	Appears late in development, just before the villus transition in intestine morphogenesis. Restricted to the epithelial compartment in both adult and fetal intestine. Ref.3
Disruption phenotype	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. Ref.3
Sequence similarities	Contains 1 homeobox DNA-binding domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Homeobox
Ligand	DNA-binding
Molecular function	Activator
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	regulation of transcription from RNA polymerase II promoter Inferred from mutant phenotype Ref.4. Source: MGI regulation of vitamin A metabolic process Inferred from mutant phenotype Ref.4. Source: MGI transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	sequence-specific DNA binding Inferred from electronic annotation. Source: InterPro sequence-specific DNA binding transcription factor activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: A1A546-1)

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.

Isoform 2 (identifier: A1A546-2)

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

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 240	240	Intestine-specific homeobox		PRO_0000288603
Regions
	DNA binding	78 – 137	60	Homeobox
Natural variations
	Alternative sequence	150 – 240	91	EAGLA…CATST → SCADTHCYDYIGTSHRMLPT LSDSAPFKLVPYTDSPCPMA PMGPTAPAWPSHPASLCPYL HVPTPTPQVGQHLCNFNIGT DFSLSKQATLLSQ in isoform 2.		VSP_025717
Experimental info
	Sequence conflict	176	1	P → L in BAB31309. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified February 6, 2007. Version 2. Checksum: C7BFA37A5950FA1B	FASTA	240	27,169
	10 20 30 40 50 60 MAGPTIHRDM EKSSGYCEAP ENLGLSFSIE AILKKPTERR SLPRPQSICK EDSRQTTIPG 70 80 90 100 110 120 SKLERPPQDQ PQEEKKNKRR VRTTFTTEQL QELEKLFHFT HYPDIHVRSQ LASRINLPEA 130 140 150 160 170 180 RVQIWFQNQR AKWRKQEKSG NLSAPQQPGE AGLALPSNMD VSGPVLTPTA MTTLVPPTEC 190 200 210 220 230 240 CLLSQTQLPS SWFPTQIPLV PWHPWDLQPL PGPLTQHPCV PTFMFPPLHP KWGSICATST
	Isoform 2 [UniParc]. Checksum: 94AB50ADCACC7EF3	FASTA	242	27,344
	10 20 30 40 50 60 MAGPTIHRDM EKSSGYCEAP ENLGLSFSIE AILKKPTERR SLPRPQSICK EDSRQTTIPG 70 80 90 100 110 120 SKLERPPQDQ PQEEKKNKRR VRTTFTTEQL QELEKLFHFT HYPDIHVRSQ LASRINLPEA 130 140 150 160 170 180 RVQIWFQNQR AKWRKQEKSG NLSAPQQPGS CADTHCYDYI GTSHRMLPTL SDSAPFKLVP 190 200 210 220 230 240 YTDSPCPMAP MGPTAPAWPS HPASLCPYLH VPTPTPQVGQ HLCNFNIGTD FSLSKQATLL SQ

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AK018615 mRNA. Translation: BAB31309.1. BC128289 mRNA. Translation: AAI28290.2. BC128290 mRNA. Translation: AAI28291.2.
IPI	IPI00316540. IPI00850211.
RefSeq	NP_082113.2. NM_027837.3.
UniGene	Mm.158735.
3D structure databases
ProteinModelPortal	A1A546.
SMR	A1A546. Positions 79-138.
ModBase	Search...
Protein-protein interaction databases
STRING	10090.ENSMUSP00000034034.
PTM databases
PhosphoSite	A1A546.
Proteomic databases
PRIDE	A1A546.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSMUST00000034034; ENSMUSP00000034034; ENSMUSG00000031621. ENSMUST00000174427; ENSMUSP00000134368; ENSMUSG00000031621.
GeneID	71597.
KEGG	mmu:71597.
UCSC	uc012ggb.1. mouse.
Organism-specific databases
CTD	91464.
MGI	MGI:1918847. Isx.
Phylogenomic databases
eggNOG	NOG252360.
GeneTree	ENSGT00700000104256.
HOGENOM	HOG000052524.
HOVERGEN	HBG096596.
InParanoid	A1A546.
OMA	CEAPENL.
OrthoDB	EOG4PZJ7F.
Gene expression databases
ArrayExpress	A1A546.
Bgee	A1A546.
CleanEx	MM_ISX.
Genevestigator	A1A546.
Family and domain databases
Gene3D	1.10.10.60. 1 hit.
InterPro	IPR017970. Homeobox_CS. IPR001356. Homeodomain. IPR009057. Homeodomain-like. [Graphical view]
Pfam	PF00046. Homeobox. 1 hit. [Graphical view]
SMART	SM00389. HOX. 1 hit. [Graphical view]
SUPFAM	SSF46689. Homeodomain_like. 1 hit.
PROSITE	PS00027. HOMEOBOX_1. 1 hit. PS50071. HOMEOBOX_2. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	334069.
SOURCE	Search...

Entry information

Entry name

ISX_MOUSE

Accession

Primary (citable) accession number: A1A546
Secondary accession number(s): A1A545, Q9D2Z0

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 29, 2007
Last sequence update:	February 6, 2007
Last modified:	May 1, 2013
This is version 60 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program