Human Gene HOXB7 (uc002inv.3) Description and Page Index
  Description: Homo sapiens homeobox B7 (HOXB7), mRNA.
RefSeq Summary (NM_004502): This gene is a member of the Antp homeobox family and encodes a protein with a homeobox DNA-binding domain. It is included in a cluster of homeobox B genes located on chromosome 17. The encoded nuclear protein functions as a sequence-specific transcription factor that is involved in cell proliferation and differentiation. Increased expression of this gene is associated with some cases of melanoma and ovarian carcinoma. [provided by RefSeq, Jul 2008]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: M16937.1, SRR5189655.10159.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1966682 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000239165.9/ ENSP00000239165.7 RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr17:46,684,595-46,688,383 Size: 3,789 Total Exon Count: 2 Strand: -
Coding Region
   Position: hg19 chr17:46,685,204-46,688,280 Size: 3,077 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr17:46,684,595-46,688,383)mRNA (may differ from genome)Protein (217 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Homeobox protein Hox-B7; AltName: Full=Homeobox protein HHO.C1; AltName: Full=Homeobox protein Hox-2C;
FUNCTION: Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.
INTERACTION: P78527:PRKDC; NbExp=2; IntAct=EBI-1248457, EBI-352053; P13010:XRCC5; NbExp=9; IntAct=EBI-1248457, EBI-357997;
SIMILARITY: Belongs to the Antp homeobox family.
SIMILARITY: Contains 1 homeobox DNA-binding domain.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): HOXB7
CDC HuGE Published Literature: HOXB7

-  MalaCards Disease Associations
  MalaCards Gene Search: HOXB7
Diseases sorted by gene-association score: ovarian endodermal sinus tumor (1), ovarian primitive germ cell tumor (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 13.68 RPKM in Kidney - Cortex
Total median expression: 124.10 RPKM

View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -15.66103-0.152 Picture PostScript Text
3' UTR -162.04609-0.266 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR017995 - Homeobox_antennapedia
IPR001827 - Homeobox_Antennapedia_CS
IPR017970 - Homeobox_CS
IPR020479 - Homeobox_metazoa
IPR001356 - Homeodomain
IPR009057 - Homeodomain-like

Pfam Domains:
PF00046 - Homeobox domain

SCOP Domains:
46689 - Homeodomain-like

ModBase Predicted Comparative 3D Structure on P09629
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 Protein SequenceProtein SequenceProtein Sequence  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding
GO:0043565 sequence-specific DNA binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0007275 multicellular organism development
GO:0009952 anterior/posterior pattern specification
GO:0030099 myeloid cell differentiation
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0048704 embryonic skeletal system morphogenesis
GO:0090190 positive regulation of branching involved in ureteric bud morphogenesis

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol
GO:0016604 nuclear body

-  Descriptions from all associated GenBank mRNAs
  LF209283 - JP 2014500723-A/16786: Polycomb-Associated Non-Coding RNAs.
M16937 - Human homeo box c1 protein, mRNA, complete cds.
AK223249 - Homo sapiens mRNA for homeo box B7 variant, clone: STM05613.
JD271685 - Sequence 252709 from Patent EP1572962.
JD163709 - Sequence 144733 from Patent EP1572962.
JD215889 - Sequence 196913 from Patent EP1572962.
S49765 - homeobox gene [human, mRNA Partial, 769 nt].
JD421154 - Sequence 402178 from Patent EP1572962.
JD192431 - Sequence 173455 from Patent EP1572962.
JD271032 - Sequence 252056 from Patent EP1572962.
JD392363 - Sequence 373387 from Patent EP1572962.
JD137075 - Sequence 118099 from Patent EP1572962.
AK290653 - Homo sapiens cDNA FLJ76026 complete cds, highly similar to Homo sapiens homeo box B7 (HOXB7), mRNA.
JD472780 - Sequence 453804 from Patent EP1572962.
LF327464 - JP 2014500723-A/134967: Polycomb-Associated Non-Coding RNAs.
BC015345 - Homo sapiens homeobox B7, mRNA (cDNA clone MGC:21362 IMAGE:4413080), complete cds.
JD214420 - Sequence 195444 from Patent EP1572962.
JD330614 - Sequence 311638 from Patent EP1572962.
JD343093 - Sequence 324117 from Patent EP1572962.
JD436237 - Sequence 417261 from Patent EP1572962.
JD052600 - Sequence 33624 from Patent EP1572962.
JD347179 - Sequence 328203 from Patent EP1572962.
M30598 - Human homeobox protein mRNA, 3' end, clone HOX2.3.
KJ896998 - Synthetic construct Homo sapiens clone ccsbBroadEn_06392 HOXB7 gene, encodes complete protein.
CU677273 - Synthetic construct Homo sapiens gateway clone IMAGE:100023267 5' read HOXB7 mRNA.
LF327463 - JP 2014500723-A/134966: Polycomb-Associated Non-Coding RNAs.
LF212438 - JP 2014500723-A/19941: Polycomb-Associated Non-Coding RNAs.
JD433596 - Sequence 414620 from Patent EP1572962.
MA563041 - JP 2018138019-A/134967: Polycomb-Associated Non-Coding RNAs.
MA563040 - JP 2018138019-A/134966: Polycomb-Associated Non-Coding RNAs.
MA444860 - JP 2018138019-A/16786: Polycomb-Associated Non-Coding RNAs.
MA448015 - JP 2018138019-A/19941: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K3N8, HOX2C, HXB7_HUMAN, NM_004502, NP_004493, P09629, Q15957, Q53FN3, Q96BQ6
UCSC ID: uc002inv.3
RefSeq Accession: NM_004502
Protein: P09629 (aka HXB7_HUMAN)
CCDS: CCDS11532.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_004502.3
exon count: 2CDS single in 3' UTR: no RNA size: 1377
ORF size: 654CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1508.00frame shift in genome: no % Coverage: 99.20
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.