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| Clone ID | The Clone ID is expressed as a letter followed by a three digit number. For example, "E007" is a valid Clone ID, but "E7" is not. |
| T7-SP6 Size | Expressed in kilobases, this is the size of the PCR amplicon of the Clone using T7 and SP6 standard primers. The cDNA clone contained in this amplicon is about 0.15 kb shorter than the T7-SP6 size due to flanking plasmid DNA. A small number of clones does not have insert sizes available at this time. |
| Nucleotide Sequence (5'-3') |
The nucleotide sequence is largely unedited sequence generated from the T7 standard primer site at the 5' end of the Clone. Some of the Clones are designated as having poor sequencing data, signifying that there was an error in the preparation of the data. We are working to re-send these Clones for sequencing in the near future. |
| In Situ Hybridization Data | For many of the clones a developmental expression series is available, using in situ RNA hybridization studies. If this link is present, clicking it will open a new window with representative images for the spatiotemporal expression pattern of the clone during Xenopus development. For some clones, in situ was performed but no pattern was detected - in these instances this information will be provided by clicking the link. |
| Forward Primer | This is one of the PCR primers we designed for amplifying a fragment of the Clone. This field will not display if no primer is entered in the database. |
| Reverse Primer | This is one of the PCR primers we designed for amplifying a fragment of the Clone. The "reverse" primer is displayed in 5'-3' on the complementary strand to the one displayed in the "nucleotide sequence" field above. This field will not display if no primer is entered in the database. |
| PCR Ta | We used this annealing temperature in the PCR reaction with the primers above. This field will not display if no annealing temperature is entered in the database. |
| PCR Product Size | Expressed in kilobases, this is the expected amplicon size from the PCR reaction using the primers above. This field will not display if no product size is entered in the database. |
| Blast results | We performed up to 7 Blast database searches at NCBI for each of the Clones. See www.ncbi.nlm.nih.gov/BLAST/ for more information on these resources. Only searches which returned a result will display for a particular clone. |
| Expect | See www.ncbi.nlm.nih.gov/blast/blast_FAQs.html#Expect for NCBI's description of this value. The number displayed in this table represents the exponent of 10 which corresponds to the E value of the best hit using this search. For example, if this table returns an Expect value of "-5," this corresponds to an NCBI E value of 10-5. |
| % Hit | This is the percent of matching nucleotides or amino acids from the best hit of a blastn or blastx hit, respectively. The percent match applies over the Span as described below. |
| Span | This is the number of nucleotides or amino acids over which the best hit matched in a blastn or blastx hit, respectively. |
| Accession no. | For the best hit in a given blast search, this number represents the unique Accession number NCBI assigned to the referenced gene, EST, clone, etc. The Accession number should display as an active link, which will open a new window in the browser and take the user to the NCBI web site and perform an automatic search for the given Accession number. This feature is under construction and may not always function correctly, but we are currently working to improve it. |