Notes
Blast only appears to match at bp 1-300 

Essentially sptlc1 with high homology is a combination of 
HS110949
AM857503
FQ665912
and maybe a touch of CU989992




Several 454 sequences align with high homology region (found using Blast)
gnl|BL_ORD_ID|347250  FU6OSJA02ILTNQ                                922    0E00
gnl|BL_ORD_ID|406924  FU6OSJA02HLXZF                                916    0E00
gnl|BL_ORD_ID|301805  FU6OSJA02JII5Q                                 865    0E00
gnl|BL_ORD_ID|432015  FU6OSJA02F8582                                 585    1E-165
gnl|BL_ORD_ID|369050  FU6OSJA02JMQRM                                565    1E-159
gnl|BL_ORD_ID|603802  FV2TRRU02GIMHG                                 272    3E-71


Starting over from scratch.

Problem: Blasting this consensus only gets significant protein hit to bp 629.
Also very concerned that top hits are all mammals.


Consensus
CCACGCGTCCGATAAAGTCCGCNCTTTTTCTGGAAGAAAGTTTGTCATTTGGCATTCTTGGTAGCAATGGGAAAGGTGTAACAGAACACTACAATATCTCTCCAGATGATATTGACTTGATTGCGGCCTCATTAGAAAATGCTATTGGATCAACAGGAGGCTTTTGCTGTGGGAAGAAATATATTGTGGACCATCAACGATTGTCAGGACTTGGATATTGCTTCTCAGCATCTTTACCTCCCATGTTAGCAACTGCAGCTATCGAGTCCCTGCGTTTGATTGATGAAAAACCAGGAATGCTTGTTGAATTGCGAGAAAACTGTGAAAAAATTCACAGCAAGCTGAGCGATATAAATGGAACCGTCATTGTAGGGGAACCTATTTCCCCAGTCAAGCACATTAGACTTGCAGAGCCAAGTACTGACAGGGACTTTGATGTGCAGACTCTGCAGAAGATAGCAGATCTCTCGAGAGACAACAAAGTTGCTGTGACGTTGGCTCGCTACTTAGAAGAGGAGGAACATAAACTTCCATTGCCAAGCATCCGGATATCTGTGAACAACCAGCTTTCAGATGAAGAAATTGACACTGTCTTCACTACACTAAGTGAAGCTTTTCAGAAAATCATCACTCATTAATGTGAAGTGCGAACAAATATCTATTGTCAGAAATATTAGGGAACAGTATTTATTTGATACTTTCTTATTGTAAAGGGTAATTGCTACACAAATCATCTTGTCTTAGACTAGGTCTTGTACAAGTATGTATATCTTAGATAATTTTCTGTATAAGGTGTTTGACATTACACATTTTCTTTTGGCCATAAGAACATTTAAAGTAAATGCATGTGTTTAAATTTGTAATTTTTTTAACAAATTGTAATGTCAAATGCCGCAAATATCGGTAGAAATGTGTCAATACACTATTAACAAGTTAAGTCTTCATAGGGCATTTATCTTGTATGTTCCAAAGGTGAGAGTTTTGTCTGCTGAGATTTGTTCACTTGAATGTTAATTTAGGATCAATCATTGTGTAAGAATTTTTTGATTTTGGTGAATTTTTATTAGAATGTTACTTGTCATCTATTGCTTTTTTCTACAAAAGTTTGTTGCTTTGAATAATATTTTGACAGACGTTG

ESSENTIAL LINK
http://www.ncbi.nlm.nih.gov/homologene/4681











From this we see high level of conservation

C. elegas fasta
>gi|71982616:80-1456 Caenorhabditis elegans Serine Palmitoyl Transferase famiLy family member (sptl-1) (sptl-1) mRNA, complete cds ATGGGATTTCTACCAGATTCGTGGCATTTCTACATTGAAACTTTGCTCGTTGCACTTCTTGCCTATGTTG TCATGCGGAACAGATCCAAACGTCAACAAGAAAAACTTTCAAAGAAACTAACTGAAAGGCAGAAAGATGA ATTAATTGCTGATTGGACTCCGGAACCATTGGTTCCTGAAACACCACAAGACCATCCTGTACTGAATCCA AAATATGCTGATGGAAAAATGACAAAGGATGTTTCGATCGATGGCGAAAAGTATCTCAACATGGCATCAA CAAATTTCCTCAGCTTTATCGGAGTCAAACGGATTGAAGACCGTGCGAAACAGACGATTTTCAAGTACGG CGTAGGATCGTGCGGGCCACGTGGATTCTACGGAACTGTTGATGTTCATTTGGACCTTGAAAAAGAATTG GCAAAATTTATGGGATGTGAGGAGGCTGTTCTGTACAGCTATGGGTTTGCTACAGTATCTTCAGCAATTC CCGCATACGCTAAAAAGGGAGATGTCATCTTTGTTGACGAAGGTGTTAACTTTGCAATCCAAAAAGGTCT TCAAGCATCACGAAGTCGTGTTGAATATTTCAAGCATAACGACATGGAGCACTTGGAGAGGTTATTACTG GAACAAGAACAAAGAGACAAGAAAGACCCGAAAAAGGCCAAGTCTGTACGGCGATTCATTGTTGTTGAAG GCCTCTATGTAAATTATGCGGATCTTTGCCCACTTCCCAAGATTATCGAGTTCAAATGGCGATTCAAAGT TCGTGTTTTCATTGACGAAAGCTGGTCATTTGGAGTCATTGGAAAAACCGGAAGAGGAGTCACCGAGCAC TTCAACGTTCCGATGGAGGACGTTGATATGGTAATGGCCTCACTCGAAAACGCATTGGCGTCAACTGGAG GATTCTGTGTTGGAAGATCATATGTAGTTGGGCATCAGCGGCTTTCAGGACTCGGATATTGCTTTTCTGC TTCTCTTCCACCTCTTCTTGCAACGGCCGCGTCTGAAGCTATTTCTATCATTGATGAAGAACCAAGTAGA GTTCAAAAAGTTACTGAAATGGCTATAAATGGTCAGAAAAAGCTACAAGATGCGCTGAGTGGATCGAAAT TTTCATTGCAAGGATGTCCAGAAAGTCCAATGAAGCATATCTATTACAATGGGGAAGATGAAGAAAAGCA ATTGGATACATTTGTGGAGACAGTCTTCACAAAAAATCATCTCCTACTGACCAGAGCTCGATACCTCGAC AAGGACGAATTGTTCAAAATTCGGCCAAGCATTCGAGTAATGTTCCAACACGACTTAACTGAAGAGGAGA TTCAAAGAGCTGTCGATGCTATCCGAGTTGTTGCTCATAAATTCTAA


megablast on Crassostrea nt database (no hits)

blastn on Crassostrea nt database (insig hits)

blastn on Crassostrea est database (below)



tblastx on Crassostrea est database



FQ6659512 nice match

>gi|318050034|gb|FQ665912.1|FQ665912 FQ665912 Crassostrea gigas library (Genoscope - CEA) Crassostrea gigas cDNA clone WY0AAA70YA15FM1, mRNA sequence GGACGCCATGGCGTCGACGTTCATTCCTCAAACATGGGAAATGTATGATATGTTTCAAGCCCTGTTGCAG GCTCCCTCATATCATCTTTTCTTCGAAGCATTGCTTATCATATGGATTTTTAAGCTGTTGTTTTTCTCTA AAGCCTACGCCCCAGAATCCGTCCTAACAGAAAAGGAAAAGGAGGAGTTGATTGCAGAATGGCAGCCGGA ACCTTTAGCTCCCGAAATTCCAGAGGACCACCCTGTTTTAATGGCGATGGAAAATAATATTATTACAGGG AAACCAGGAAAATATGTAACCATTAATGGAAAATCTTGTGTTAACATGGCTACATTAAACTTTCTTGGCA TGGCAGGGAACCCATCTGCGGAGGTAGAGGCCATCAAAACTCTGAAAAAGTATGGAGTGGGATCATGTGG ACCCAGAGGTTTCTATGGCACAATGGACGTCCATTTAGAACTTGAAGACAAAATAGCAAAATTCATGAAT TGTGAGGAAGCTATATTATATGCTTTTGGCTTTGCGACCATAGCGAGTGCTATCCCAGCTTACTCGAAAC GTGGAGATGTAATATTTGCTGATGAGGGAGTATGCTTTGCTATACAGAAAGGACTCGTTGCCTCAAGAAG CAAAATAAAGTGGTTCAAACACAATGATATGGAGGATCTGGAGCGTCTACTTATTGAACAAGCAAAGGAG GACAAGAAAAACCCTAAGAAAGCCAAAGTGACCAGAAGATTTCTTGTTGTGGAAGGACTCTACATTAACT ATGGTGACTTATGTCCACTTCCAAAATTAGTTGAACTCAAGTGGAAGTAT

megablast FQ6659512 Crassostrea ESTs (no other hits)

blastn against 454 trimmed reads
hits
FU6OSJA02JII5Q
FU6OSJA02F8582

Assembled



Consensus
>FQ665912plusFU6OSJA02JII5Q
GGACGCCATGGCGTCGACGTTCATTCCTCAAACATGGGAAATGTATGATATGTTTCAAGCCCTGTTGCAGGCTCCCTCATATCATCTTTTCTTCGAAGCATTGCTTATCATATGGATTTTTAAGCTGTTGTTTTTCTCTAAAGCCTACGCCCCAGAATCCGTCCTAACAGAAAAGGAAAAGGAGGAGTTGATTGCAGAATGGCAGCCGGAACCTTTAGCTCCCGAAATTCCAGAGGACCACCCTGTTTTAATGGCGATGGAAAATAATATTATTACAGGGAAACCAGGAAAATATGTAACCATTAATGGAAAATCTTGTGTTAACATGGCTACATTAAACTTTCTTGGCATGGCAGGGAACCCATCTGCGGAGGTAGAGGCCATCAAAACTCTGAAAAAGTATGGAGTGGGATCATGTGGACCCAGAGGTTTCTATGGCACAATGGACGTCCATTTAGAACTTGAAGACAAAATAGCAAAATTCATGAATTGTGAGGAAGCTATATTATATGCTTTTGGCTTTGCGACCATAGCGAGTGCTATCCCAGCTTACTCGAAACGTGGAGATGTAATATTTGCTGATGAGGGAGTATGCTTTGCTATACAGAAAGGACTCGTTGCCTCAAGAAGCAAAATAAAGTGGTTCAAACACAACGATATGGAGGATCTGGAGCGTCTACTTATTGAACAAGCAAAGGAGGACAAGAAAAACCCTAAGAAAGCCAAAGTGACCAGAAGATTTCTTGTTGTGGAAGGACTCTACATTAACTATGGTGACTTATGTCCACTTCCAAAATTAGTTGAACTCAAGTGGAAGTATAAAGTCCGCCTTTTTCTGGAAGAAAGTTTGTCATTTGGCATTCTTGGTAGCAATGGGAAAGGTGTAACAGAACACTACAATATCTCTCCAGATGATATTGACTTGATTGCGGCCTCATCAGAAAATGCTATTGGATCAACAGGAGGCTTTTGCTGTGGGAAGAAATATATTGTGGACCATCAACGATTGTCAGGACTTGGATATTGCTTCTCAGCATCTTTACCTCCCATGTTAGCAACTGCAGCTATCGAGTCCCTGCGTTTGATTGATGAAAACCAGGAATGCTTGTT




Blast new consensus on 454 data




Hits include
FU6OSJA02JII5Q (duh)
FU6OSJA02F8582
FU6OSJA02ILTNQ
FU6OSJA02HLXZF 





new consensus
>FQ665912plusFU6OSJA02JII5Q_FU6OSJA02HLXZF
GGACGCCATGGCGTCGACGTTCATTCCTCAAACATGGGAAATGTATGATATGTTTCAAGCCCTGTTGCAGGCTCCCTCATATCATCTTTTCTTCGAAGCATTGCTTATCATATGGATTTTTAAGCTGTTGTTTTTCTCTAAAGCCTACGCCCCAGAATCCGTCCTAACAGAAAAGGAAAAGGAGGAGTTGATTGCAGAATGGCAGCCGGAACCTTTAGCTCCCGAAATTCCAGAGGACCACCCTGTTTTAATGGCGATGGAAAATAATATTATTACAGGGAAACCAGGAAAATATGTAACCATTAATGGAAAATCTTGTGTTAACATGGCTACATTAAACTTTCTTGGCATGGCAGGGAACCCATCTGCGGAGGTAGAGGCCATCAAAACTCTGAAAAAGTATGGAGTGGGATCATGTGGACCCAGAGGTTTCTATGGCACAATGGACGTCCATTTAGAACTTGAAGACAAAATAGCAAAATTCATGAATTGTGAGGAAGCTATATTATATGCTTTTGGCTTTGCGACCATAGCGAGTGCTATCCCAGCTTACTCGAAACGTGGAGATGTAATATTTGCTGATGAGGGAGTATGCTTTGCTATACAGAAAGGACTCGTTGCCTCAAGAAGCAAAATAAAGTGGTTCAAACACAACGATATGGAGGATCTGGAGCGTCTACTTATTGAACAAGCAAAGGAGGACAAGAAAAACCCTAAGAAAGCCAAAGTGACCAGAAGATTTCTTGTTGTGGAAGGACTCTACATTAACTATGGTGACTTATGTCCACTTCCAAAATTAGTTGAACTCAAGTGGAAGTATAAAGTCCGCCTTTTTCTGGAAGAAAGTTTGTCATTTGGCATTCTTGGTAGCAATGGGAAAGGTGTAACAGAACACTACAATATCTCTCCAGATGATATTGACTTGATTGCGGCCTCATTAGAAAATGCTATTGGATCAACAGGAGGCTTTTGCTGTGGGAAGAAATATATTGTGGACCATCAACGATTGTCAGGACTTGGATATTGCTTCTCAGCATCTTTACCTCCCATGTTAGCAACTGCAGCTATCGAGTCCCTGCGTTTGATTGATGAAAAACCAGGAATGCTTGTTGAATTGCGAGAAAATTGTGAAAAAATTCACAGCAAGCTGAGCGATATAAATGGAACCGTCATTGTAGGGGAACCTATTTCCCCAGTCAAACACATTAGACTTGCAGAGCCAAGTACTGACAGGGACTTTGATGTGCAGACTCTGCAGAAGATAGCAGATCTCTCGAGAGACAACAAAGTTGCTGTGACGTTGGCTCGCTACTTAGAAGAGGAGGAACATAAACTGCCATTGCCAAGCAT


still good match
note - full protein about 473





gnl|BL_ORD_ID|347250  FU6OSJA02ILTNQ                                946    0E00
gnl|BL_ORD_ID|301805  FU6OSJA02JII5Q                                944    0E00
gnl|BL_ORD_ID|406924  FU6OSJA02HLXZF                                940    0E00
gnl|BL_ORD_ID|369050  FU6OSJA02JMQRM                                573    1E-161
gnl|BL_ORD_ID|432015  FU6OSJA02F8582                                548    6E-154
gnl|BL_ORD_ID|603802  FV2TRRU02GIMHG                                280    2E-73
gnl|BL_ORD_ID|410751  FU6OSJA02JOE9S                                123    3E-26


new consensus
>>FQ665912plusFU6OSJA02JII5Q_FU6OSJA02HLXZF_FU6OSJA02JMQRM
GGACGCCATGGCGTCGACGTTCATTCCTCAAACATGGGAAATGTATGATATGTTTCAAGCCCTGTTGCAGGCTCCCTCATATCATCTTTTCTTCGAAGCATTGCTTATCATATGGATTTTTAAGCTGTTGTTTTTCTCTAAAGCCTACGCCCCAGAATCCGTCCTAACAGAAAAGGAAAAGGAGGAGTTGATTGCAGAATGGCAGCCGGAACCTTTAGCTCCCGAAATTCCAGAGGACCACCCTGTTTTAATGGCGATGGAAAATAATATTATTACAGGGAAACCAGGAAAATATGTAACCATTAATGGAAAATCTTGTGTTAACATGGCTACATTAAACTTTCTTGGCATGGCAGGGAACCCATCTGCGGAGGTAGAGGCCATCAAAACTCTGAAAAAGTATGGAGTGGGATCATGTGGACCCAGAGGTTTCTATGGCACAATGGACGTCCATTTAGAACTTGAAGACAAAATAGCAAAATTCATGAATTGTGAGGAAGCTATATTATATGCTTTTGGCTTTGCGACCATAGCGAGTGCTATCCCAGCTTACTCGAAACGTGGAGATGTAATATTTGCTGATGAGGGAGTATGCTTTGCTATACAGAAAGGACTCGTTGCCTCAAGAAGCAAAATAAAGTGGTTCAAACACAACGATATGGAGGATCTGGAGCGTCTACTTATTGAACAAGCAAAGGAGGACAAGAAAAACCCTAAGAAAGCCAAAGTGACCAGAAGATTTCTTGTTGTGGAAGGACTCTACATTAACTATGGTGACTTATGTCCACTTCCAAAATTAGTTGAACTCAAGTGGAAGTATAAAGTCCGCCTTTTTCTGGAAGAAAGTTTGTCATTTGGCATTCTTGGTAGCAATGGGAAAGGTGTAACAGAACACTACAATATCTCTCCAGATGATATTGACTTGATTGCGGCCTCATTAGAAAATGCTATTGGATCAACAGGAGGCTTTTGCTGTGGGAAGAAATATATTGTGGACCATCAACGATTGTCAGGACTTGGATATTGCTTCTCAGCATCTTTACCTCCCATGTTAGCAACTGCAGCTATCGAGTCCCTGCGTTTGATTGATGAAAAACCAGGAATGCTTGTTGAATTGCGAGAAAATTGTGAAAAAATTCACAGCAAGCTGAGCGATATAAATGGAACCGTCATTGTAGGGGAACCTATTTCCCCAGTCAAGCACATTAGACTTGCAGAGCCAAGTACTGACAGGGACTTTGATGTGCAGACTCTGCAGAAGATAGCAGATCTCTCGAGAGACAACAAAGTTGCTGTGACGTTGGCTCGCTACTTAGAAGAGGAGGAACATAAACTTCCATTGCCAAGCATCCGGATATCTGTGAACAACCAGCTTTCAGATGAAGAAATTGACACTGTCTTCACTACACTAAGTGAAGCTTTTCAGAAAATCATCACTCATTAATGTGAAGTGCGAACAAATATACTATTGTCAGAAATATTGGGGAACAGTATTTAATTTGAATACTTTC