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[190300_s_at] RNA binding protein

Description F22B5.2 /REP_DB=WormBase Gene ID /WP=CE02197 /TR=SW:Q19706 /GB=CAA90354.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=RNA binding protein
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 06      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 21      6grp_total > 04      4grp_total > 02      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2878
1 2 3 4 range
A 1965.5
(-2.8)
P 		2028.7
(-2.7)
P 		1879.6
(-3)
P 		4606.8
(3)
P 		2727
B 2038.9
(-2.3)
P 		1729
(-3)
P 		1995.2
(-2.4)
P 		4213.2
(3)
P 		2484
C 1832
(-2.8)
P 		1740.4
(-3)
P 		1828.2
(-2.8)
P 		3952.1
(3)
P 		2212
avr 1945.5
(-2.7) 		1832.7
(-3) 		1901
(-2.8) 		4257.4
(3) 		2425

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1007
1 2 3 4 5 6 range
A 1571.3
(3)
P 		1287.3
(0.9)
P 		935.3
(-1.8)
P 		1238.7
(0.5)
P 		771
(-3)
P 		952.8
(-1.6)
P 		800
B 1597.8
(3)
P 		1329
(1.1)
P 		946.7
(-1.5)
P 		1025.7
(-0.9)
P 		844.7
(-2.2)
P 		727.7
(-3)
P 		870
C 1640.4
(3)
P 		1223.7
(0.5)
P 		1217.1
(0.5)
P 		968.6
(-1)
P 		978.9
(-0.9)
P 		633.3
(-3)
P 		1007
avr 1603.2
(3) 		1280
(0.7) 		1033
(-1.1) 		1077.7
(-0.8) 		864.9
(-2.3) 		771.3
(-3) 		832
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 471
1 2 3 4 range
A 715.7
(3)
P 		440.4
(-3)
P 		491.4
(-1.9)
P 		674.4
(2.1)
P 		275
B 650.2
(-0.2)
P 		427
(-3)
P 		462.3
(-2.6)
P 		897.8
(3)
P 		471
C 606.5
(0.8)
P 		500.4
(-3)
P 		637.2
(1.9)
P 		666.4
(3)
P 		166
avr 657.5
(1.2) 		455.9
(-3) 		530.3
(-1.5) 		746.2
(3) 		290

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 413
1 2 3 4 5 6 range
A 289.7
(-1)
P 		457.8
(3)
P 		203.7
(-3)
P 		314.2
(-0.4)
P 		232.6
(-2.3)
P 		232
(-2.3)
P 		254
B 556
(3)
P 		442.4
(0.9)
P 		229.9
(-3)
P 		271.7
(-2.2)
P 		343.2
(-0.9)
P 		271.3
(-2.2)
P 		326
C 608
(3)
P 		373.4
(-0.4)
P 		309.8
(-1.3)
P 		194.8
(-3)
P 		316.8
(-1.2)
P 		212
(-2.8)
P 		413
avr 484.6
(3) 		424.5
(1.5) 		247.8
(-2.8) 		260.2
(-2.5) 		297.5
(-1.6) 		238.4
(-3) 		246
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190300_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2772
Sequence Type Exemplar sequence
Representative Public ID F22B5.2 NCBI
Target Description F22B5.2 /REP_DB=WormBase Gene ID /WP=CE02197 /TR=SW:Q19706 /GB=CAA90354.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=RNA binding protein
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_063377(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063377 NCBI Caenorhabditis elegans Eukaryotic Initiation Factor family member (eif-3.G) (eif-3.G) mRNA, complete cds. 11/11 None
SNAP00000010401 ENSEMBL cdna:SNAP chromosome:CEL140:II:8442770:8443830:1 11/11 None
GENEFINDER00000010411 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8442770:8443830:1 11/11 None
F22B5.2 ENSEMBL cdna:known chromosome:CEL140:II:8442693:8444161:1 gene:F22B5.2 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:8442766-8443827(+) 100.0 100.0
Public Domain and Genome References
Gene Title RNA binding protein
Gene Symbol eif-3.G
Ensembl F22B5.2
Entrez Gene 174346 Entrez gene
SwissProt Q19706 EMBL-EBI
WormBase CE02197 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250758_AT eukaryotic translation initiation factor 3G, putative / eIF3g, putative at
CANINE:1591542_AT similar to Eukaryotic translation initiation factor 3 subunit 4 (eIF-3 delta) (eIF3 p44) (eIF-3 RNA-binding subunit) (eIF3 p42) (eIF3g) cfa
CANINE_2:CFA.223.1.S1_AT similar to Eukaryotic translation initiation factor 3 subunit 4 (eIF-3 delta) (eIF3 p44) (eIF-3 RNA-binding subunit) (eIF3 p42) (eIF3g) cfa
CANINE_2:CFAAFFX.27415.1.S1_S_AT similar to Eukaryotic translation initiation factor 3 subunit 4 (eIF-3 delta) (eIF3 p44) (eIF-3 RNA-binding subunit) (eIF3 p42) (eIF3g) cfa
DROSOPHILA_2:1637215_AT dm
DROSGENOME1:150262_AT dm
HG-U133A:208887_AT eukaryotic translation initiation factor 3, subunit 4 delta, 44kDa hs
HG-U133_PLUS_2:208887_AT eukaryotic translation initiation factor 3, subunit 4 delta, 44kDa hs
HG-FOCUS:208887_AT eukaryotic translation initiation factor 3, subunit 4 delta, 44kDa hs
HG-U133A_2:208887_AT eukaryotic translation initiation factor 3, subunit 4 delta, 44kDa hs
HU35KSUBA:RC_AA496882_S_AT eukaryotic translation initiation factor 3, subunit 4 delta, 44kDa hs
U133_X3P:G12653882_3P_AT eukaryotic translation initiation factor 3, subunit 4 delta, 44kDa hs
HG-U95AV2:34302_AT eukaryotic translation initiation factor 3, subunit 4 delta, 44kDa hs
MG-U74AV2:96883_AT eukaryotic translation initiation factor 3, subunit 4 (delta) mm
MG-U74BV2:164386_I_AT eukaryotic translation initiation factor 3, subunit 4 (delta) mm
MOE430A:1417718_AT eukaryotic translation initiation factor 3, subunit 4 (delta) mm
MOUSE430A_2:1417718_AT eukaryotic translation initiation factor 3, subunit 4 (delta) mm
MOUSE430_2:1417718_AT eukaryotic translation initiation factor 3, subunit 4 (delta) mm
MU19KSUBB:TC27226_S_AT Eukaryotic translation initiation factor 3, subunit 4 (delta), mRNA (cDNA clone MGC:5726 IMAGE:3592537) mm
MU19KSUBB:TC31049_AT Eukaryotic translation initiation factor 3, subunit 4 (delta), mRNA (cDNA clone MGC:5726 IMAGE:3592537) mm
MU19KSUBB:TC31049_G_AT Eukaryotic translation initiation factor 3, subunit 4 (delta), mRNA (cDNA clone MGC:5726 IMAGE:3592537) mm
RG-U34B:RC_AI070087_AT eukaryotic translation initiation factor 3, subunit 4 (delta) (predicted) rn
RAE230A:1388381_AT eukaryotic translation initiation factor 3, subunit 4 (delta) (predicted) rn
RAT230_2:1388381_AT eukaryotic translation initiation factor 3, subunit 4 (delta) (predicted) rn
YEAST_2:1772632_AT Subunit of the core complex of translation initiation factor 3(eIF3), which is essential for translation Sc
Protein Similarities
Method ID Description E-Value
blast CAA90354 Hypothetical protein F22B5.2 [Caenorhabditis elegans] ref|NP_495778.1| Eukaryotic Initiation Factor family member (eif-3.G) [Caenorhabditis elegans] sp|Q19706|IF34_CAEEL Probable eukaryotic translation initiation factor 3 subunit 4 (eIF-3 delta) (eIF3 p44) (eIF-3 RNA-binding subunit) (eIF3g) 1.0E-140
blast CAE57647 Hypothetical protein CBG00635 [Caenorhabditis briggsae] emb|CAE57074.1| Hypothetical protein CBG24970 [Caenorhabditis briggsae] 1.0E-128
blast AAT68153 eukaryotic translation initiation factor 3 subunit 4 [Danio rerio] 9.0E-37
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 7.7E-26
Sequence
Target Sequence 
>C. ELEGANS:190300_S_AT
gtaccaaaagtcgtcgctgatcgcaaaaaatgggtgaaattcggaagttgtaagggagag
ccagcaggaccccaagttgccacaacttacgtggctgaagaagtcgatatgcaattcaca
agaaatcgcgcaggagagcagattcttgacgttcaagaagacaaacagactgctaaaact
acaagccgtgagcattgccgtcattgcaaaggaaacgaccattggagtactcattgtcct
tacaaggtcatgtaccaattggacgaggaagctgatgctgacaaggatactgaaaaggat
agaatggcaatgggaatgcgtcctgatggaagacaaatcgatagaaatcgatccgatgag
aatacatgccgtgtcaccaatcttccgcaagagatgaacgaagacgaacttcgtgatttg
ttcggaaagattggaagagtcatccgaatcttcattgcccgtgacaaagtcactggtctc
ccgaaaggattcgccttcgttacatttgaatcaagagatgacgccgcccgtgcaattgca
gaactcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTACCAAAAGTCGTCGCTGATCGCA 45 459 178 Antisense
TAAGGGAGAGCCAGCAGGACCCCAA 181 635 228 Antisense
GACCCCAAGTTGCCACAACTTACGT 278 381 245 Antisense
ACTACAAGCCGTGAGCATTGCCGTC 231 101 355 Antisense
ATTGGAGTACTCATTGTCCTTACAA 458 3 398 Antisense
AATACATGCCGTGTCACCAATCTTC 51 173 538 Antisense
GAATCTTCATTGCCCGTGACAAAGT 91 327 623 Antisense
AAAGTCACTGGTCTCCCGAAAGGAT 292 119 643 Antisense
AAGGATTCGCCTTCGTTACATTTGA 499 159 662 Antisense
TTGAATCAAGAGATGACGCCGCCCG 41 703 683 Antisense
CCGCCCGTGCAATTGCAGAACTCAA 244 263 701 Antisense
Sequence Source Affymetrix Proprietary Database