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Number of protein-coding transcripts corresponding to the submitted sequence identifier: 1
Representative transcript (= transcript with the highest number of ATTTA motifs): ENST00000282091
Total number of distinct positions containing the selected motif ATTTA: 1
Total number of distinct positions containing the selected motif WWATTTAWW: 1
Regulation of this mRNA by the RNA-binding proteins TTP, HuR or AUF1 (click here to hide corresponding literature):
Type of evidence that this mRNA is a target of AUF1:
binding to target RNA
effect on reporter construct
effect on target at protein level
effect on target at RNA level
effect on target RNA stability
Publications providing the experimental evidence: Increased parathyroid hormone gene expression in secondary hyperparathyroidism of experimental uremia is reversed by calcimimetics: correlation with posttranslational modification of the trans acting factor AUF1
Levi, R, Ben-Dov, I Z, Lavi-Moshayoff, V, Dinur, M, Martin, D, Naveh-Many, T, Silver, J J Am Soc Nephrol (2006) 17 (1) 107-112.
Identification and characterization of cis-acting elements in the human and bovine PTH mRNA 3'-untranslated region
Bell, O, Silver, J, Naveh-Many, T J Bone Miner Res (2005) 20 (5) 858-866.
Identification of AUF1 as a parathyroid hormone mRNA 3'-untranslated region-binding protein that determines parathyroid hormone mRNA stability
Sela-Brown, A, Silver, J, Brewer, G, Naveh-Many, T J Biol Chem (2000) 275 (10) 7424-7429.
ATTTA (ATTTA) Opening energy for the core AUUUA pentamer: 1.21 kcal/mol (short range) / 1.27 kcal/mol (mid range)
Probability of being unpaired for the core AUUUA pentamer: 0.14 (short range) / 0.13 (mid range)
[ Highlight | show accessibility plot | show sequence logo | show alignment ]
Short range interaction (W = 80, L = 40)
Mid range interaction (W = 240, L = 160)
Note: Accessibility values (energy needed to open secondary structures, probability of being unpaired) are calculated using RNAplfold. RNAplfold has been called with various setting for u=n, where n is the number of consecutive bases. For example, the value at position i with u=5 is the probability that i and the four preceeding nucleotides are unpaired. Taking the logarithm of this probability we can easliy derive the opening energy for this stretch of nucleoitdes.
TAATTTATA (WWATTTAWW) Opening energy for the core AUUUA pentamer: 1.21 kcal/mol (short range) / 1.27 kcal/mol (mid range)
Probability of being unpaired for the core AUUUA pentamer: 0.14 (short range) / 0.13 (mid range)
[ Highlight | show accessibility plot | show sequence logo | show alignment ]
Short range interaction (W = 80, L = 40)
Mid range interaction (W = 240, L = 160)
Note: Accessibility values (energy needed to open secondary structures, probability of being unpaired) are calculated using RNAplfold. RNAplfold has been called with various setting for u=n, where n is the number of consecutive bases. For example, the value at position i with u=5 is the probability that i and the four preceeding nucleotides are unpaired. Taking the logarithm of this probability we can easliy derive the opening energy for this stretch of nucleoitdes.
The tree below summarizes the conservation pattern of the detected ARE motifs.
Circles indicate genomic MAF alignments, while boxes are used transcript alignments.
Signs in grey indicate that the sequence is present in the alignment, but the correpsonding ARE pattern was not detected.
