| Gene | T2H3.6 |
| Putative Identification | pectinesterase |
| Position | 3594 to 7262, from the initial methionine to the termination codon |
| Strand | + |
| EST hits | none |
| Database match | several plant pectinesterases |
CDS: The table below lists the coordinates of the T2H3.6 exons and which exon prediction algorithms selected the 5' and 3' termini (GS = GenScan, Gr = GRAIL, M = MZEF, NPG = NetPlantGene - selects splice sites only, not exons).
| Exon | Range | 5' | 3' |
|---|---|---|---|
| 1 | 3594 - 4339 | GS | GS, Gr, M, NPG |
| 2 | 4946 - 5106 | GS, Gr, M | GS, Gr, M |
| 3 | 6571 - 7262 | GS, Gr, M, NPG | GS, Gr |
Alternate exons not used in building the gene model: GRAIL predicts an initial exon from 4053 to 4339. MZEF predicts internal exons from 3547 to 4339 and from 6571 to 6894. NetPlantGene predicts many putative splice sites in this region. Those with high confidence scores include splice donors at 5012 (0.96) and 6894 (0.88).
Complete CDS of T2H3.6
ATGATAAATAATCATCCAATTAGAGAAAAACCAAAACACATTATTTTCAACTTACTGTCA CTAATCTTTTTCCTAATCTTCTTATCCACCGTTGTTTCATCTCAATCACCATCATACACC ACTCACAAAACCCAGCGTTTAACCGAAACCAAAACCATCCCCGAGCTTATCATCGCGGAC TTAAACCTAACCATCTTAAAGGTTAATCTCGCTTCCTCCAACTTCTCCGACCTCCAAACC CGTCTTTTTCCAAACCTAACCCACTATGAACGTTGCGCATTCGAAGACTGTCTCGGGCTA CTCGATGACACCATCTCCGACCTCGAAACCGCAGTCTCCGATCTTCGATCTTCCTCTCTT GAGTTCAACGACATCAGCATGTTGCTCACCAACGTCATGACATACCAAGATACGTGTCTT GATGGTTTCTCGACAAGTGACAATGAGAATAATAATGATATGACGTATGAATTGCCTGAG AACTTGAAGGAGATCATCTTAGACATCTCTAACAACCTTAGCAACTCCCTCCATATGCTT CAGGTGATTTCCAGGAAGAAACCTTCCCCGAAATCATCAGAAGTTGACGTTGAGTACCCG AGTTGGCTCTCAGAGAATGACCAGAGACTCCTTGAGGCTCCGGTACAAGAGACCAATTAC AATCTCTCGGTGGCGATTGATGGTACCGGAAACTTCACAACCATTAATGATGCCGTCTTT GCTGCTCCCAACATGAGCGAAACTAGATTTATTATCTATATAAAAGGTGGGGAATATTTT GAGAACGTCGAATTACCTAAGAAGAAGACAATGATAATGTTTATCGGAGATGGTATCGGA AAAACAGTCATAAAAGCAAACCGCAGCCGCATTGATGGATGGTCAACATTTCAAACTCCT ACCGTAGGCGTGAAAGGTAAAGGCTACATAGCAAAGGACATATCATTCGTGAATTCTGCA GGACCGGCCAAAGCACAGGCTGTGGCCTTTCGAAGCGGCTCTGATCACTCTGCCTTTTAC CGTTGTGAGTTCGATGGTTACCAAGACACCCTTTATGTTCATTCAGCCAAACAATTTTAT CGAGAATGCGATATATATGGTACAATCGATTTCATATTCGGCAATGCGGCTGTTGTGTTC CAGAATAGTAGTCTTTATGCTCGTAAACCTAATCCTGGACATAAAATTGCATTCACCGCT CAAAGCCGCAATCAGTCGGACCAGCCCACGGGTATATCTATACTTAATTGTAGAATCTTG GCCGCACCTGATTTGATCCCTGTGAAAGAAAACTTCAAGGCGTACTTAGGTCGACCATGG AGAAAATATTCTAGGACGGTTATCATAAAATCATTTATTGATGATCTTATACATCCCGCT GGATGGTTGGAGGGGAAAAAAGATTTTGCACTTGAAACTTTATATTATGGAGAGTATATG AATGAAGGGCCTGGGGCAAACATGGCAAAGCGAGTCACATGGCCTGGTTTTAGACGCATC GAAAACCAAACGGAGGCTACCCAATTCACAGTCGGTCCATTTATCGACGGTAGCACATGG CTAAATTCAACTGGCATCCCTTTTAGTCTTGGTTTCTAA
Protein translation of T2H3.6
MINNHPIREKPKHIIFNLLSLIFFLIFLSTVVSSQSPSYTTHKTQRLTETKTIPELIIAD LNLTILKVNLASSNFSDLQTRLFPNLTHYERCAFEDCLGLLDDTISDLETAVSDLRSSSL EFNDISMLLTNVMTYQDTCLDGFSTSDNENNNDMTYELPENLKEIILDISNNLSNSLHML QVISRKKPSPKSSEVDVEYPSWLSENDQRLLEAPVQETNYNLSVAIDGTGNFTTINDAVF AAPNMSETRFIIYIKGGEYFENVELPKKKTMIMFIGDGIGKTVIKANRSRIDGWSTFQTP TVGVKGKGYIAKDISFVNSAGPAKAQAVAFRSGSDHSAFYRCEFDGYQDTLYVHSAKQFY RECDIYGTIDFIFGNAAVVFQNSSLYARKPNPGHKIAFTAQSRNQSDQPTGISILNCRIL AAPDLIPVKENFKAYLGRPWRKYSRTVIIKSFIDDLIHPAGWLEGKKDFALETLYYGEYM NEGPGANMAKRVTWPGFRRIENQTEATQFTVGPFIDGSTWLNSTGIPFSLGF*
Protein motifs: A pectinesterase signature is found from residues 367 to 374. Pectin esterase catalyzes the hydrolysis of pectin to pectate and methanol.
367 GTIDFIFG 374
written 17 Aug 98
Larry
Parnell