Human Gene SAFB (uc010xit.2)
Description: Homo sapiens scaffold attachment factor B (SAFB), transcript variant 5, non-coding RNA.
Transcript (Including UTRs)
Position: hg19 chr19:5,623,046-5,668,489 Size: 45,444 Total Exon Count: 19 Strand: +
Coding Region
Position: hg19 chr19:5,626,426-5,668,302 Size: 41,877 Coding Exon Count: 18
Data last updated at UCSC: 2013-06-14
Sequence and Links to Tools and Databases
Primer design for this transcript
Comparative Toxicogenomics Database (CTD)
Common Gene Haplotype Alleles
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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
Microarray Expression Data
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mRNA Secondary Structure of 3' and 5' UTRs
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 IPR012677 - Nucleotide-bd_a/b_plait
IPR000504 - RRM_dom
Pfam Domains: PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF13893 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
SCOP Domains: 54928 - RNA-binding domain, RBD
ModBase Predicted Comparative 3D Structure on B7Z2F6
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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.
Mouse Rat Zebrafish D. melanogaster C. elegans S. cerevisiae
No ortholog No ortholog No ortholog No ortholog No ortholog No ortholog
Gene Details
Gene Sorter
Gene Ontology (GO) Annotations with Structured Vocabulary
Descriptions from all associated GenBank mRNAs
AK294718 - Homo sapiens cDNA FLJ56691 complete cds, highly similar to Scaffold attachment factor B.AB208780 - Homo sapiens mRNA for scaffold attachment factor B variant protein.AK307970 - Homo sapiens cDNA, FLJ97918.AK295298 - Homo sapiens cDNA FLJ59523 complete cds, highly similar to Scaffold attachment factor B.AK293152 - Homo sapiens cDNA FLJ59451 complete cds, highly similar to Scaffold attachment factor B.AK095736 - Homo sapiens cDNA FLJ38417 fis, clone FEBRA2009731, highly similar to Human Hsp27 ERE-TATA-binding protein (HET) mRNA.AK304474 - Homo sapiens cDNA FLJ54736 complete cds, highly similar to Scaffold attachment factor B.AK298707 - Homo sapiens cDNA FLJ54745 complete cds, highly similar to Scaffold attachment factor B.AK290444 - Homo sapiens cDNA FLJ76656 complete cds, highly similar to Homo sapiens scaffold attachment factor B (SAFB), mRNA.BC020309 - Homo sapiens scaffold attachment factor B, mRNA (cDNA clone IMAGE:4999249).BC032055 - Homo sapiens scaffold attachment factor B, mRNA (cDNA clone IMAGE:3919120).U72355 - Human Hsp27 ERE-TATA-binding protein (HET) mRNA, complete cds.BC126219 - Homo sapiens scaffold attachment factor B, mRNA (cDNA clone MGC:161497 IMAGE:8991935), complete cds.BC143938 - Homo sapiens scaffold attachment factor B, mRNA (cDNA clone MGC:177473 IMAGE:9052456), complete cds.BC143939 - Homo sapiens scaffold attachment factor B, mRNA (cDNA clone MGC:177474 IMAGE:9052457), complete cds.BC143937 - Homo sapiens scaffold attachment factor B, mRNA (cDNA clone MGC:177472 IMAGE:9052455), complete cds.AK299525 - Homo sapiens cDNA FLJ59404 complete cds, highly similar to Scaffold attachment factor B.AK294671 - Homo sapiens cDNA FLJ54744 complete cds, highly similar to Scaffold attachment factor B.L43631 - Homo sapiens scaffold attachment factor B (SAF-B) mRNA, partial cds.JD312354 - Sequence 293378 from Patent EP1572962.CR749251 - Homo sapiens mRNA; cDNA DKFZp779C1727 (from clone DKFZp779C1727).JD299341 - Sequence 280365 from Patent EP1572962.
Other Names for This Gene
Alternate Gene Symbols: B7Z2F6, B7Z2F6_HUMAN, NR_037699UCSC ID: uc010xit.2RefSeq Accession: NR_037699
Protein: B7Z2F6
Gene Model Information
category:
coding
nonsense-mediated-decay:
no
RNA accession:
NR_037699.1
exon count:
19 CDS single in 3' UTR:
no
RNA size:
2846
ORF size:
2280 CDS single in intron:
no
Alignment % ID:
100.00
txCdsPredict score:
4561.00 frame shift in genome:
no
% Coverage:
99.68
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
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Methods, Credits, and Use Restrictions
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