http://www.phosphatome.net/wiki/index.php?action=history&feed=atom&title=Phosphatase_GeneID_SpurP030
Phosphatase GeneID SpurP030 - Revision history
2026-04-11T07:09:10Z
Revision history for this page on the wiki
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http://www.phosphatome.net/wiki/index.php?title=Phosphatase_GeneID_SpurP030&diff=3025&oldid=prev
Mark at 21:05, 29 September 2015
2015-09-29T21:05:02Z
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<td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 21:05, 29 September 2015</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>ACTIONS      QUERY          SCORE START  END QSIZE IDENTITY CHRO STRAND  START    END      SPAN</div></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>ACTIONS      QUERY          SCORE START  END QSIZE IDENTITY CHRO STRAND  START    END      SPAN</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>browser details SpurP030        1130    1  377  377 100.0%  Scaffold35563  +-      8548    10360  1813</div></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>browser details SpurP030        1130    1  377  377 100.0%  Scaffold35563  +-      8548    10360  1813</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>browser details SpurP030        1130    1  377  377 100.0%  Scaffold14519  ++    131552    133364  1813</div></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>browser details SpurP030        1130    1  377  377 100.0%  Scaffold14519  ++    131552    133364  1813</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>browser details SpurP031        1581    1  529  529 100.0%  Scaffold14519  ++    102754    133364  30611</div></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>browser details SpurP031        1581    1  529  529 100.0%  Scaffold14519  ++    102754    133364  30611</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>browser details SpurP031        1130  153  529  529 100.0%  Scaffold35563  +-      8548    10360  1813</div></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>browser details SpurP031        1130  153  529  529 100.0%  Scaffold35563  +-      8548    10360  1813</div></td></tr>
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Mark
http://www.phosphatome.net/wiki/index.php?title=Phosphatase_GeneID_SpurP030&diff=3023&oldid=prev
Mark: Created page with "SpurP030 is identical to part of SpurP030 in protein sequence. To find whether they are encoded by the same gene: 1. BLAT the two protein sequences of SpurP030 and SpurP031 ..."
2015-09-29T20:58:50Z
<p>Created page with "SpurP030 is identical to part of SpurP030 in protein sequence. To find whether they are encoded by the same gene: 1. BLAT the two protein sequences of SpurP030 and SpurP031 ..."</p>
<p><b>New page</b></p><div>SpurP030 is identical to part of SpurP030 in protein sequence. To find whether they are encoded by the same gene:<br />
<br />
1. BLAT the two protein sequences of SpurP030 and SpurP031<br />
<br />
ACTIONS QUERY SCORE START END QSIZE IDENTITY CHRO STRAND START END SPAN<br />
browser details SpurP030 1130 1 377 377 100.0% Scaffold35563 +- 8548 10360 1813<br />
browser details SpurP030 1130 1 377 377 100.0% Scaffold14519 ++ 131552 133364 1813<br />
browser details SpurP031 1581 1 529 529 100.0% Scaffold14519 ++ 102754 133364 30611<br />
browser details SpurP031 1130 153 529 529 100.0% Scaffold35563 +- 8548 10360 1813<br />
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2. Get the genomic sequences aligned to SpurP030 and compare them by BL2SEQ: they are identical.<br />
<br />
3. Further, BLAT the region of the shorter scaffold Scaffold35563:3506-10451, bounded by repeats. The sequence is 99.6% identical to the region of Scaffold14519. I also BLATed the region downstream Scaffold35563:12978-17572 (the region 10452-12977 has repeats), which only matches to Scaffold35563.<br />
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In sum, SpurP030 and SpurP030 are either gene originated by recent duplication or they are artifacts due to gene assembly.</div>
Mark