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[194233_x_at] glycine-rich RNA-binding protein

Description CEK115EXR_rc /REP_DB=TREMBL Accession /GB=D73197 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk115e10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 56      4grp_highest_8_8 > 13      4grp_high_8_8 > 31      6grp_highest_nonorm > 72      6grp_total > 56      4grp_total > 24      6grp_highest_sub > Cu      6grp_high1_sub > Cu      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 466
1 2 3 4 range
A 311.1
(-3)
P 		589.3
(0.6)
P 		608.9
(0.8)
P 		777.4
(3)
P 		466
B 386.8
(-3)
P 		525.4
(1.2)
P 		582.6
(3)
P 		582.7
(3)
P 		196
C 386.9
(-3)
P 		479.7
(-0.8)
P 		606.8
(2.3)
P 		636.5
(3)
P 		250
avr 361.6
(-3) 		531.5
(0.4) 		599.4
(1.7) 		665.5
(3) 		304

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 270
1 2 3 4 5 6 range
A 570.4
(3)
P 		378.1
(-2.1)
P 		401.6
(-1.5)
P 		344.8
(-3)
P 		458.2
(0)
P 		425.4
(-0.9)
P 		226
B 354.3
(-3)
P 		439.4
(0)
P 		447.1
(0.3)
P 		428.4
(-0.4)
P 		377.1
(-2.2)
P 		523
(3)
P 		169
C 330.4
(-2.2)
P 		526.8
(3)
P 		371.2
(-1.1)
P 		339.9
(-1.9)
P 		300.2
(-3)
P 		519.8
(2.8)
P 		227
avr 418.4
(-0.6) 		448.1
(0.9) 		406.6
(-1.2) 		371
(-3) 		378.5
(-2.6) 		489.4
(3) 		118
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 104
1 2 3 4 range
A 113.3
(-3)
P 		127.9
(-1.1)
P 		159.2
(3)
P 		113.8
(-2.9)
P 		46
B 123.4
(-3)
P 		129.8
(0.3)
P 		135
(3)
P 		124.2
(-2.6)
P 		12
C 128.1
(-1.8)
P 		137.9
(-1.2)
P 		211.5
(3)
P 		107.3
(-3)
P 		104
avr 121.6
(-2.3) 		131.9
(-1.1) 		168.6
(3) 		115.1
(-3) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 127
1 2 3 4 5 6 range
A 105.1
(-0.9)
P 		134.5
(2.6)
P 		87.5
(-3)
P 		87.5
(-3)
P 		138.3
(3)
P 		103.6
(-1.1)
P 		51
B 123.3
(-2)
P 		146.3
(-0.4)
P 		108.6
(-3)
P 		113.5
(-2.7)
P 		153.2
(0.1)
P 		195
(3)
P 		86
C 122.5
(0.1)
P 		160.8
(2.3)
P 		94.5
(-1.5)
P 		68.4
(-3)
P 		97.1
(-1.4)
P 		174
(3)
P 		106
avr 117
(-0.6) 		147.2
(2.1) 		96.9
(-2.4) 		89.8
(-3) 		129.5
(0.5) 		157.5
(3) 		68
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194233_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21436
Sequence Type Exemplar sequence
Representative Public ID CEK115EXR NCBI
Target Description CEK115EXR_rc /REP_DB=TREMBL Accession /GB=D73197 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk115e10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_069150(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069150 NCBI Caenorhabditis elegans D1046.1 (D1046.1) mRNA, complete cds. 11/11 None
D1046.1.4 ENSEMBL cdna:known chromosome:CEL140:IV:8926317:8930282:1 gene:D1046.1 11/11 A 
D1046.1.3 ENSEMBL cdna:known chromosome:CEL140:IV:8926317:8930297:1 gene:D1046.1 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000023087 3/11 Cross Hyb Matching Probes None
D1046.1.1 7/11 Cross Hyb Matching Probes A 
D1046.1.2 7/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:8929003-8929949(+) 100.0 100.0
Public Domain and Genome References
Gene Title glycine-rich RNA-binding protein
Ensembl D1046.1
Entrez Gene 177710 Entrez gene
SwissProt Q18937 EMBL-EBI
WormBase CE03094 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248071_AT RNA recognition motif (RRM)-containing protein at
CANINE:1585493_AT similar to cleavage and polyadenylation specific factor 6, 68 kD subunit cfa
CANINE_2:CFA.12286.1.A1_AT similar to cleavage and polyadenylation specific factor 6, 68 kD subunit cfa
CANINE_2:CFAAFFX.1592.1.S1_S_AT similar to cleavage and polyadenylation specific factor 6, 68 kD subunit cfa
CANINE_2:CFAAFFX.1594.1.S1_S_AT similar to cleavage and polyadenylation specific factor 6, 68 kD subunit cfa
DROSOPHILA_2:1635863_AT dm
DROSGENOME1:154322_AT dm
HG-U133_PLUS_2:202470_S_AT cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133A:202470_S_AT cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133A_2:202470_S_AT cleavage and polyadenylation specific factor 6, 68kDa hs
HUGENEFL:X67337_AT cleavage and polyadenylation specific factor 6, 68kDa hs
U133_X3P:G5901927_3P_A_AT cleavage and polyadenylation specific factor 6, 68kDa hs
U133_X3P:HS.64542.0.S1_3P_A_AT cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133A_2:202469_S_AT cleavage and polyadenylation specific factor 6, 68kDa hs
HG-FOCUS:202469_S_AT cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133_PLUS_2:202469_S_AT cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133A:202469_S_AT cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95AV2:35757_AT cleavage and polyadenylation specific factor 6, 68kDa hs
HU35KSUBA:RC_D60026_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HU35KSUBC:RC_AA074276_F_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HU35KSUBD:RC_AA284565_F_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
U133_X3P:HS.34804.0.S1_3P_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133_PLUS_2:226934_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133B:226934_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95B:45119_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95D:85022_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133_PLUS_2:236582_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133B:236582_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133_PLUS_2:238651_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133B:238651_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133_PLUS_2:238913_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133B:238913_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133_PLUS_2:243530_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U133B:243530_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95B:44761_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95C:62699_R_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95D:69631_R_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95D:69930_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95E:75532_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95D:76207_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95D:83602_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HG-U95E:84231_R_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HU35KSUBA:RC_AA348412_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
HU35KSUBB:RC_W91995_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
U133_X3P:HS.120232.0.A1_3P_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
U133_X3P:HS.16145.0.A1_3P_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
U133_X3P:HS.280685.0.A1_3P_AT Cleavage and polyadenylation specific factor 6, 68kDa hs
MOUSE430_2:1428231_AT cleavage and polyadenylation specific factor 6 mm
MOE430B:1428231_AT cleavage and polyadenylation specific factor 6 mm
MOUSE430_2:1428233_AT cleavage and polyadenylation specific factor 6 mm
MOE430B:1428233_AT cleavage and polyadenylation specific factor 6 mm
MOE430B:1428234_AT cleavage and polyadenylation specific factor 6 mm
MOUSE430_2:1428234_AT cleavage and polyadenylation specific factor 6 mm
MOUSE430_2:1428232_AT cleavage and polyadenylation specific factor 6 mm
MOE430B:1428232_AT cleavage and polyadenylation specific factor 6 mm
MG-U74BV2:108479_AT cleavage and polyadenylation specific factor 6 mm
MG-U74BV2:112961_AT cleavage and polyadenylation specific factor 6 mm
MG-U74BV2:106978_AT cleavage and polyadenylation specific factor 6 mm
MG-U74BV2:115547_AT cleavage and polyadenylation specific factor 6 mm
MOE430B:1437372_AT cleavage and polyadenylation specific factor 6 mm
MOUSE430_2:1437372_AT cleavage and polyadenylation specific factor 6 mm
MOE430B:1439188_AT cleavage and polyadenylation specific factor 6 mm
MOUSE430_2:1439188_AT cleavage and polyadenylation specific factor 6 mm
RG-U34C:RC_AI169591_AT cleavage and polyadenylation specific factor 6, 68kDa (predicted) rn
RAE230A:1376811_A_AT cleavage and polyadenylation specific factor 6, 68kDa (predicted) rn
RAT230_2:1376811_A_AT cleavage and polyadenylation specific factor 6, 68kDa (predicted) rn
RAE230B:1379729_AT Cleavage and polyadenylation specific factor 6, 68kDa (predicted) rn
RAT230_2:1379729_AT Cleavage and polyadenylation specific factor 6, 68kDa (predicted) rn
RAE230B:1394994_AT Cleavage and polyadenylation specific factor 6, 68kDa (predicted) rn
RAT230_2:1394994_AT Cleavage and polyadenylation specific factor 6, 68kDa (predicted) rn
RAE230B:1395954_AT Cleavage and polyadenylation specific factor 6, 68kDa (predicted) rn
RAT230_2:1395954_AT Cleavage and polyadenylation specific factor 6, 68kDa (predicted) rn
RG-U34C:RC_AI071906_AT Cleavage and polyadenylation specific factor 6, 68kDa (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAA92294 Hypothetical protein D1046.1 [Caenorhabditis elegans] ref|NP_501551.2| D1046.1 [Caenorhabditis elegans] 0.0
blast CAE74070 Hypothetical protein CBG21723 [Caenorhabditis briggsae] 1.0E-165
blast AAQ97763 cleavage and polyadenylation specific factor 6, 68kDa [Danio rerio] ref|NP_001017993.1| cleavage and polyadenylation specific factor 6 [Danio rerio] 6.0E-22
Sequence
Target Sequence 
>C. ELEGANS:194233_X_AT
ataacacgactttcttcaaattcaagattatttctattttactcttcaattttcactttt
tcaacaatttgaaatgttatataatctctaaatttcattctcaatgttcactggtcgatt
tcgatttattctcacttgcatacgggatctgctcacttgtactctaaaattgtccagcag
catccacgtggcatcgagttcaaatcggaatcgtcaaaaaaaatccccgcaaaatcctct
caacagaaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATAACACGACTTTCTTCAAATTCAA 356 25 27 Antisense
GATTATTTCTATTTTACTCTTCAAT 671 429 52 Antisense
TACTCTTCAATTTTCACTTTTTCAA 115 647 66 Antisense
TCATTCTCAATGTTCACTGGTCGAT 694 617 121 Antisense
GATTTCGATTTATTCTCACTTGCAT 174 429 143 Antisense
TCACTTGCATACGGGATCTGCTCAC 425 627 158 Antisense
GATCTGCTCACTTGTACTCTAAAAT 285 419 172 Antisense
TAAAATTGTCCAGCAGCATCCACGT 230 639 191 Antisense
GCATCCACGTGGCATCGAGTTCAAA 497 307 206 Antisense
GTGGCATCGAGTTCAAATCGGAATC 356 491 214 Antisense
CCCGCAAAATCCTCTCAACAGAAAT 23 261 252 Antisense
Sequence Source Affymetrix Proprietary Database