Human Gene SDE2 (uc001hpu.4)
Description: Homo sapiens SDE2 telomere maintenance homolog (S. pombe) (SDE2), mRNA.
Transcript (Including UTRs)
Position: hg19 chr1:226,170,403-226,187,066 Size: 16,664 Total Exon Count: 7 Strand: -
Coding Region
Position: hg19 chr1:226,173,003-226,187,013 Size: 14,011 Coding Exon Count: 7
Data last updated at UCSC: 2013-06-14
Sequence and Links to Tools and Databases
Comments and Description Text from UniProtKB
ID: SDE2_HUMAN
DESCRIPTION: RecName: Full=Protein SDE2 homolog;
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.SIMILARITY: Belongs to the SDE2 family.
Primer design for this transcript
Comparative Toxicogenomics Database (CTD)
The following chemicals interact with this gene
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 IPR024974 - Sde2_N
Pfam Domains: PF13019 - Telomere stability and silencing
PF13297 - Telomere stability C-terminal
ModBase Predicted Comparative 3D Structure on Q6IQ49
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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.
Gene Ontology (GO) Annotations with Structured Vocabulary
Descriptions from all associated GenBank mRNAs
BC016290 - Homo sapiens chromosome 1 open reading frame 55, mRNA (cDNA clone IMAGE:3907648), with apparent retained intron.BX648319 - Homo sapiens mRNA; cDNA DKFZp686O02131 (from clone DKFZp686O02131).LF383664 - JP 2014500723-A/191167: Polycomb-Associated Non-Coding RNAs.BC071563 - Homo sapiens chromosome 1 open reading frame 55, mRNA (cDNA clone MGC:87025 IMAGE:5261192), complete cds.AK127780 - Homo sapiens cDNA FLJ45881 fis, clone OCBBF3020414.JD064538 - Sequence 45562 from Patent EP1572962.JD064537 - Sequence 45561 from Patent EP1572962.JD242841 - Sequence 223865 from Patent EP1572962.JD120063 - Sequence 101087 from Patent EP1572962.AK291008 - Homo sapiens cDNA FLJ76172 complete cds.AK092701 - Homo sapiens cDNA FLJ35382 fis, clone SKMUS2007915, weakly similar to Splicing factor 3a, subunit 3, 60kD.AX747679 - Sequence 1204 from Patent EP1308459.JD504337 - Sequence 485361 from Patent EP1572962.JD320515 - Sequence 301539 from Patent EP1572962.LF321188 - JP 2014500723-A/128691: Polycomb-Associated Non-Coding RNAs.LF321187 - JP 2014500723-A/128690: Polycomb-Associated Non-Coding RNAs.AK308441 - Homo sapiens cDNA, FLJ98389.LF321186 - JP 2014500723-A/128689: Polycomb-Associated Non-Coding RNAs.LF321185 - JP 2014500723-A/128688: Polycomb-Associated Non-Coding RNAs.LF321184 - JP 2014500723-A/128687: Polycomb-Associated Non-Coding RNAs.LF321183 - JP 2014500723-A/128686: Polycomb-Associated Non-Coding RNAs.LF321182 - JP 2014500723-A/128685: Polycomb-Associated Non-Coding RNAs.MA619241 - JP 2018138019-A/191167: Polycomb-Associated Non-Coding RNAs.MA556765 - JP 2018138019-A/128691: Polycomb-Associated Non-Coding RNAs.MA556764 - JP 2018138019-A/128690: Polycomb-Associated Non-Coding RNAs.MA556763 - JP 2018138019-A/128689: Polycomb-Associated Non-Coding RNAs.MA556762 - JP 2018138019-A/128688: Polycomb-Associated Non-Coding RNAs.MA556761 - JP 2018138019-A/128687: Polycomb-Associated Non-Coding RNAs.MA556760 - JP 2018138019-A/128686: Polycomb-Associated Non-Coding RNAs.MA556759 - JP 2018138019-A/128685: Polycomb-Associated Non-Coding RNAs.
Other Names for This Gene
Alternate Gene Symbols: A8K4P3, C1orf55, NM_152608, NP_689821, Q5TD36, Q6IQ49, Q6ZS26, Q8NAG7, SDE2_HUMANUCSC ID: uc001hpu.4RefSeq Accession: NM_152608
Protein: Q6IQ49
(aka SDE2_HUMAN)
CCDS: CCDS41473.1
Gene Model Information
category:
coding
nonsense-mediated-decay:
no
RNA accession:
NM_152608.3
exon count:
7 CDS single in 3' UTR:
no
RNA size:
4029
ORF size:
1356 CDS single in intron:
no
Alignment % ID:
100.00
txCdsPredict score:
2512.00 frame shift in genome:
no
% Coverage:
99.50
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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