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H1FNT Gene

protein-coding   GIFtS: 43

GC12P047012
H1 histone family, member N, testis-specific
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
H1T2 1, 2
HANP1 1, 2, 3
Descriptions
H1 histone family, member N, testis-specific 2
Haploid germ cell-specific nuclear protein 1 2, 3
Histone H1t2 3
External Ids
HGNC: 248931
Entrez Gene: 3415672
UniProtKB: Q75WM63
Ensembl: ENSG000001871667
Search outside databases for aliases for H1FNT gene

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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UniProtKB/Swiss-Prot: H1FNT_HUMAN, Q75WM6
Function: Essential for normal spermatogenesis and male fertility. Required for proper cell
restructuring and DNA condensation during the elongation phase of spermiogenesis. Involved in the
histone-protamine transition of sperm chromatin and the subsequent production of functional sperm.
Binds both double-stranded and single-stranded DNA, ATP and protamine-1 (By similarity)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
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Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the H1FNT gene  

Entrez Gene cytogenetic band: 12q13.11   Ensembl cytogenetic band:  12q13.11   HGNC cytogenetic band: 12q13.11

H1FNT Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12P047012:     (about GC identifiers)

Start:
47,009,030 bp from pter
End:
47,010,329 bp from pter
Size:
1,300 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000012.10  NT_029419.11  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: H1FNT_HUMAN, Q75WM6 (See protein sequence)
Recommended Name: Testis-specific H1 histone  
Size: 255 amino acids; 28116 Da
Subcellular location: Nucleus (By similarity). Note=In round and elongating spermatids,
specifically localizes to a chromatin domain at the apical pole (By similarity)
Caution: It is uncertain whether Met-1 or Met-22 is the initiator
Secondary accessions: Q147U8 Q5GKZ5 Q7Z694

REFSEQ proteins: NP_861453.1  

ENSEMBL proteins: 
ENSP00000334805 


Human Recombinant Proteins 
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Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (Histone H1)
Browse Abnova for Human Recombinant Proteins
              OriGene Purified Recombinant Human Protein: H1FNT 

3 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0000790 nuclear chromatin ISS15710904
GO:0005634 nucleus IEA--
GO:0005694 chromosome IEA--
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Antibodies for H1FNT: 
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Antibodies from Abcam (Histone H1), each with their AbpromiseSM
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Search Novus for antibodies for H1FNT

Assays for H1FNT: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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ProtoNet protein and cluster: Q75WM6

UniProtKB/Swiss-Prot: H1FNT_HUMAN, Q75WM6
Similarity: Belongs to the histone H1/H5 family

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (H1FNT)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_181788

              Applied Biosystems Silencer® siRNAs for H1FNT

              Sigma-Aldrich siRNA for H1FNT  
                     Sigma-Aldrich shRNA for H1FNT  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Browse Clone Ranger at Invitrogen for clones
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_181788
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_181788
                                 untagged cDNA clone in CMV expression vector: NM_181788 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_181788

UniProtKB/Swiss-Prot: H1FNT_HUMAN, Q75WM6
Function: Essential for normal spermatogenesis and male fertility. Required for proper cell
restructuring and DNA condensation during the elongation phase of spermiogenesis. Involved in the
histone-protamine transition of sperm chromatin and the subsequent production of functional sperm.
Binds both double-stranded and single-stranded DNA, ATP and protamine-1 (By similarity)

1 MGI mutant phenotype (inferred from 2 alleles(MGI details for H1fnt):

reproductive system

3 Gene Ontology (GO) molecular function terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0000166 nucleotide binding IEA--
GO:0003677 DNA binding IEA--
GO:0005524 ATP binding IEA--
About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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1 Interacting protein for H1FNT (ENSP000003348053) via UniProtKB, MINT, and/or STRING
InteractantInteraction Details
GeneCardExternal ID(s)
HIST1H1TENSP000003412143STRING (score=.856)
About this table

5/6 Gene Ontology (GO) biological process terms (links to tree view) (see all 6 ):

GO IDQualified GO termEvidencePubMed IDs
GO:0007076 mitotic chromosome condensation IEA--
GO:0007275 multicellular organismal development IEA--
GO:0007283 spermatogenesis IEA--
GO:0007290 spermatid nucleus elongation ISS15710904
GO:0030154 cell differentiation IEA--
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for H1FNT

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (H1FNT)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_181788

              Sigma-Aldrich siRNA for H1FNT  
                     Sigma-Aldrich shRNA for H1FNT  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_181788  

REFSEQ mRNAs for H1FNT gene: 

NM_181788.1   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_181788  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_181788
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_181788
                                 untagged cDNA clone in CMV expression vector: NM_181788 

Additional cDNA sequence: 

AB121028.2 AY302593.1 BC118635.1 BC119787.1 

1 DOTS entry:

DT.40227313 

17 AceView cDNA sequences:

AI650408 BE502688 AI990167 BF431650 AY302593 AI808336 BE466599 NM_181788 
AI671196 AI624717 AB121028 AW665295 BI825819 AI142283 AW013835 BX335317 
AA903784 

highest scoring ESTs for H1FNT:

AI142283 AI808336 AA903784 AB121028 AI624717 AI650408 AI671196 AI990167 AW013835 AW665295 

Unigene Cluster for H1FNT:

H1 histone family, member N, testis-specific
Hs.155833  [show with all ESTs]
Unigene Representative Sequence: AY302593


GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:
ENST00000335017  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

H1FNT expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for H1FNT

1 / 2 / 3

6 probe-sets matching H1FNT gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
87271_at2, 3 U95-E 1 1.00 1.00 0.67 1.30 AI808336 1.00 1.00 1.00 1

80231_at2, 3 U95-D 1 1.00 1.00 0.55 0.71 AI142283 1.00 1.00 1.00 1

238373_at2, 3 U133-B 1 1.00 1.00 -- -- AW665295 0.80 1.00 0.91 1

236876_at2, 3 U133-B 1 1.00 1.00 -- -- AW013835 0.80 1.00 0.91 1

238373_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

236876_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
GeneDecks  H1FNT for binary patterns associated with the probe-sets selected above  
About GeneDecksing
About this table    
Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: GCTGAGGCGC

SOURCE GeneReport for Unigene cluster: Hs.155833

UniProtKB/Swiss-Prot: H1FNT_HUMAN, Q75WM6
Tissue specificity: Testis-specific

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for H1FNT gene from 5 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
LOC6093031   -- similar to histone H1 variant 73.61(n)
60(a)
609303  XM_846542.1  XP_851635.1 
chimpanzee
(Pan troglodytes)
H1FNT1   -- H1 histone family, member N, testis-specific 99.08(n)
97.65(a)
743587  XM_001160555.1  XP_001160555.1 
cow
(Bos taurus)
H1FNT1   -- H1 histone family, member N, testis-specific 72.92(n)
59.37(a)
617351  XM_869593.2  XP_874686.1 
rat
(Rattus norvegicus)
H1fnt1   -- H1 histone family, member N, testis-specific 61.24(n)
52.49(a)
500928  NM_001024356.1  NP_001019527.1 
mouse
(Mus musculus)
H1fnt1, 5 155
H1 histone family, member N, testis-specific1, 5 58.56(n)1
50.45(a)1
700691  NM_027304.11  NP_081580.11 
 AB0162735  AI0376355  (see all 9)
About this table        Species with no ortholog for H1FNT

ENSEMBL Gene Tree for H1FNT
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

  --
(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/28 NCBI SNPs in H1FNT are shown (see all 28 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 21)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 12 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs14719971,2
A,C,F,H,O47009862(-) CGTTCC/TGTCTC 1 R/Q mis1 ese310Minor allele frequency- T:0.21MN EU EA WA NA 1704
rs22616081,2
A,C,F,H47007901(-) TAAAGT/AATTAT 1 -- ng51 tfbs34Minor allele frequency- A:0.44EU EA WA 414
rs27324411,2
A,C,F,H47009591(-) GTTTCG/CGAGCT 1 G/R mis1 ese38Minor allele frequency- C:0.30EU EA WA 830
rs20549031,2
A,C,F,H47010760(-) CCAGGC/TCCTAT 1 -- ng314Minor allele frequency- T:0.14EU EA WA 410
rs24509941,2
A,C,F,H47008099(-) ATACAC/TAGCGG 1 -- ng519Minor allele frequency- T:0.16NS EU EA WA 522
rs22914831,2
C,F,H47010051(-) GCTTGG/AAGCTT 1 F/S mis1 ese35Minor allele frequency- A:0.16EA EU WA 1904
--
rs24090031,2
A,C47007543(+) ttgcaC/Tcactg 1 -- ng510--------
--
rs24090041,2
A,C47007718(+) ttacaC/Tagcct 1 -- ng510--------
rs108757971,2
A,C47010818(+) TTCCCA/GATGGA 1 -- ng310--------
--
rs26346861,2
C47007556(-) ccaggC/Ttggag 1 -- ng510--------
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HapMap Linkage Disequilibrium images for H1FNT (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

  --

(Possibly Related Articles in Doctor's Guide)
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  --

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
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7 PubMed articles for H1FNT gene:
(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)
(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
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Entrez Gene: 341567 HGNC: 24893 AceView: LOC341567 Ensembl:ENSG00000187166 euGenes: HUgn341567
ECgene: H1FNT H-InvDB: H1FNT
(According to HUGE)
About This Section

  --
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

  --
(Available from WIS Yeda, Salk, Tufts)
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  --
(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for H1FNT:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



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 Predesigned and custom siRNAs for H1FNT Browse antibodies at Sigma-Aldrich
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Lentivirus-delivered shRNAs for H1FNT Browse small molecules at Sigma-Aldrich
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 shRNA in GFP-retroviral vector
 Search Tocris compounds for H1FNT




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 Search Novus for antibodies for H1FNT

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