Table 5 |
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|
KOG-assigned EST clusters predicted to be highly 1N-specific based on statistical comparison of libraries |
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|
Cluster ID |
Number of 1N ESTs |
P-value |
Homolog ID |
Homolog description |
BLAST |
|
|
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|
Amino acid transport and metabolism |
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|
GS01965 |
6 |
7.8 × 10-3 |
CDO_CAEBR |
Cysteine dioxygenase |
8 × 10-19 |
|
GS00820 |
7 |
3.9 × 10-3 |
*Q8GYS4_ARATH |
Putative uncharacterized protein |
5 × 10-11 |
|
Carbohydrate transport and metabolism |
|||||
|
GS01922 |
6 |
7.8 × 10-3 |
AAPC_CENCI |
Putative apospory-associated protein C |
2 × 10-25 |
|
Cell cycle control, cell division, chromosome partitioning |
|||||
|
GS00508 |
6 |
7.8 × 10-3 |
†Cyclin_N |
Cyclin, N-terminal domain |
1 × 10-09 |
|
Chromatin structure and dynamics |
|||||
|
GS09138 |
13 |
6.1 × 10-5 |
H4_OLILU |
Histone H4 |
1 × 10-38 |
|
Cytoskeleton |
|||||
|
GS00708 |
6 |
7.8 × 10-3 |
DYI3_ANTCR |
Dynein intermediate chain 3, ciliary |
6 × 10-62 |
|
Function unknown |
|||||
|
GS00091 |
6 |
7.8 × 10-3 |
EMAL4_MOUSE |
Echinoderm microtubule-associated protein-like 4 |
4 × 10-36 |
|
GS02362 |
7 |
3.9 × 10-3 |
*A8Q1G0_MALGO |
Putative uncharacterized protein |
8 × 10-16 |
|
GS00939 |
6 |
7.8 × 10-3 |
* B8BBW9_ORYSI |
Putative uncharacterized protein |
9 × 10-08 |
|
General function prediction only |
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|
GS01285 |
6 |
7.8 × 10-3 |
EHMT2_MOUSE |
Histone-lysine N-methyltransferase |
3 × 10-13 |
|
GS08284 |
8 |
2.0 × 10-3 |
EI2B_AQUAE |
Putative translation initiation factor eIF-2B |
4 × 10-27 |
|
GS00938 |
7 |
3.9 × 10-3 |
MORN3_HUMAN |
MORN repeat-containing protein 3 |
4 × 10-18 |
|
GS00985 |
6 |
7.8 × 10-3 |
PTHD2_MOUSE |
Patched domain-containing protein 2 |
2 × 10-08 |
|
Inorganic ion transport and metabolism |
|||||
|
GS01939 |
6 |
7.8 × 10-3 |
AMT12_ARATH |
Ammonium transporter 1 member 2 |
2 × 10-25 |
|
GS02431 |
8 |
2.0 × 10-3 |
RABL5_DANRE |
Rab-like protein 5 |
3 × 10-28 |
|
GS01141 |
6 |
7.8 × 10-3 |
TM9S2_RAT |
Transmembrane 9 superfamily member 2 |
7 × 10-84 |
|
GS00197 |
6 |
7.8 × 10-3 |
ARF1_SALBA |
ADP-ribosylation factor 1 |
1 × 10-70 |
|
Nucleotide transport and metabolism |
|||||
|
GS00406 |
7 |
3.9 × 10-3 |
NDK7_HUMAN |
Nucleoside diphosphate kinase 7 |
2 × 10-32 |
|
Posttranslational modification, protein turnover, chaperones |
|||||
|
GS00465 |
6 |
7.8 × 10-3 |
TRAP1_DICDI |
TNF receptor-associated protein 1 homolog, mitochondrial precursor |
1 × 10-98 |
|
GS04078 |
6 |
7.8 × 10-3 |
BIRC7_HUMAN |
Baculoviral IAP repeat-containing protein 7 |
2 × 10-06 |
|
GS01693 |
6 |
7.8 × 10-3 |
IQCAL_HUMAN |
IQ and AAA domain-containing protein ENSP00000340148 |
3 × 10-41 |
|
GS00324 |
8 |
2.0 × 10-3 |
TTLL4_HUMAN |
Tubulin polyglutamylase |
1 × 10-42 |
|
GS06285 |
7 |
3.9 × 10-3 |
IAP3_NPVOP |
Apoptosis inhibitor 3 |
1 × 10-05 |
|
GS03771 |
6 |
7.8 × 10-3 |
14335_ORYSJ |
14-3-3-like protein GF14-E |
1 × 10-34 |
|
GS01424 |
6 |
7.8 × 10-3 |
PCSK7_RAT |
Proprotein convertase subtilisin/kexin type 7 precursor |
2 × 10-08 |
|
GS01530 |
6 |
7.8 × 10-3 |
YDM9_SCHPO |
Uncharacterized RING finger protein C57A7.09 precursor |
3 × 10-07 |
|
GS00537 |
7 |
3.9 × 10-3 |
XRP2_XENLA |
Protein XRP2 |
5 × 10-20 |
|
Signal transduction mechanisms |
|||||
|
GS01456 |
8 |
2.0 × 10-3 |
CML12_ARATH |
Calmodulin-like protein 12 |
3 × 10-11 |
|
GS03471 |
6 |
7.8 × 10-3 |
DNAL1_CHLRE |
Flagellar outer arm dynein light chain 1 |
1 × 10-52 |
|
GS00910 |
14 |
3.1 × 10-5 |
KAPR2_DROME |
amp-dependent protein kinase type II regulatory subunit |
2 × 10-08 |
|
GS04612 |
6 |
7.8 × 10-3 |
RHOM_DROME |
Protein rhomboid |
3 × 10-08 |
|
GS02444 |
11 |
2.4 × 10-4 |
ANR11_HUMAN |
Ankyrin repeat domain-containing protein 11 |
3 × 10-09 |
|
GS02191 |
6 |
7.8 × 10-3 |
LRC50_HUMAN |
Leucine-rich repeat-containing protein 50 |
1 × 10-54 |
|
GS00234 |
7 |
3.9 × 10-3 |
KCC1A_RAT |
Calcium/calmodulin-dependent protein kinase type 1 |
1 × 10-51 |
|
GS00184 |
6 |
7.8 × 10-3 |
TNI3K_RAT |
Serine/threonine-protein kinase |
3 × 10-14 |
|
GS01544 |
7 |
3.9 × 10-3 |
|||
|
GS03554 |
7 |
3.9 × 10-3 |
†PH |
Plecstrin homology domain |
3 × 10-09 |
|
Transcription |
|||||
|
GS00117 |
8 |
2.0 × 10-3 |
MYB_DROME |
Myb protein |
9 × 10-06 |
|
GS00273 |
8 |
2.0 × 10-3 |
MYB_CHICK |
Myb proto-oncogene protein (C-myb) |
3 × 10-34 |
|
GS01762 |
6 |
7.8 × 10-3 |
MYBB_CHICK |
Myb-related protein B |
5 × 10-06 |
|
|
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|
Only clusters with zero ESTs originating from the 2N library are shown. The number of 1N EST reads in each cluster and the P-value for significance of the difference between libraries are shown. When no Swiss-Prot homolog was detected, ID and homology values for the top Uniprot homolog are given (indicated by an asterisk), or the CDD name and homology values are given (indicated by †). Clusters are arranged by KOG class. Clusters in bold were chosen for RT-PCR validation. Additional data file 4 gives a complete list of all clusters predicted to be 1N-specific by statistical comparison of libraries. |
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|
von Dassow et al. Genome Biology 2009 10:R114 doi:10.1186/gb-2009-10-10-r114 |
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