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[189609_s_at]

Description C14A4.4 /REP_DB=WormBase Gene ID /WP=CE02145 /TR=Q17951 /GB=CAA90108.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=autoantigen PM-SCL
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 77      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 75      6grp_total > 68      4grp_total > 05      6grp_highest_sub > Da      6grp_cgc > 39      6grp_high1_sub > Da      6grp_cgc_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1942
1 2 3 4 range
A 1189.3
(-0.3)
P 		544.7
(-3)
P 		580.8
(-2.8)
P 		1985.1
(3)
P 		1440
B 1331.5
(-0.5)
P 		544.4
(-3)
P 		531.9
(-3)
P 		2415.9
(3)
P 		1884
C 1280.9
(0.2)
P 		474
(-3)
P 		654
(-2.3)
P 		1999.3
(3)
P 		1525
avr 1267.2
(-0.2) 		521
(-3) 		588.9
(-2.7) 		2133.4
(3) 		1612

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 671
1 2 3 4 5 6 range
A 834.8
(-2.5)
P 		935
(-1.2)
P 		793.6
(-3)
P 		988.8
(-0.5)
P 		1029.5
(0)
P 		1258.7
(3)
P 		465
B 900.1
(1.4)
P 		740.5
(-0.9)
P 		588
(-3)
P 		746.1
(-0.8)
P 		843.1
(0.6)
P 		1014.8
(3)
P 		427
C 795.5
(-1.2)
P 		754.9
(-1.9)
P 		1029.9
(3)
P 		762.7
(-1.8)
P 		692.9
(-3)
P 		923.7
(1.1)
P 		337
avr 843.5
(-2.1) 		810.1
(-2.9) 		803.8
(-3) 		832.5
(-2.3) 		855.2
(-1.8) 		1065.7
(3) 		262
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 397
1 2 3 4 range
A 433
(3)
P 		118.2
(-3)
P 		151.8
(-2.4)
P 		290.6
(0.3)
P 		315
B 424.6
(1.6)
P 		134.5
(-2.8)
P 		123.3
(-3)
P 		514.8
(3)
P 		392
C 424
(3)
P 		136.3
(-3)
P 		227.9
(-1.1)
P 		337.1
(1.2)
P 		288
avr 427.2
(3) 		129.7
(-3) 		167.7
(-2.2) 		380.8
(2.1) 		298

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 236
1 2 3 4 5 6 range
A 153.9
(-3)
P 		332.5
(3)
P 		172.8
(-2.4)
P 		250.8
(0.3)
P 		310.7
(2.3)
P 		306.5
(2.1)
P 		179
B 313.2
(1.3)
P 		246.5
(-0.4)
P 		142.8
(-3)
P 		197.6
(-1.6)
P 		342.5
(2.1)
P 		378.4
(3)
P 		236
C 294.9
(2.4)
P 		230.4
(-0)
P 		262.1
(1.2)
P 		153.4
(-3)
P 		224.2
(-0.3)
P 		309.2
(3)
P 		156
avr 254
(-0.3) 		269.8
(0.3) 		192.6
(-3) 		200.6
(-2.7) 		292.5
(1.3) 		331.4
(3) 		139
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189609_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2865
Sequence Type Exemplar sequence
Representative Public ID C14A4.4 NCBI
Target Description C14A4.4 /REP_DB=WormBase Gene ID /WP=CE02145 /TR=Q17951 /GB=CAA90108.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=autoantigen PM-SCL
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_182164(11), NM_063882(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182164 NCBI Caenorhabditis elegans Cell-death-Related Nuclease family member (crn-3) (crn-3) mRNA, complete cds. 11/11 None
NM_063882 NCBI Caenorhabditis elegans Cell-death-Related Nuclease family member (crn-3) (crn-3) mRNA, complete cds. 11/11 None
SNAP00000002485 ENSEMBL cdna:SNAP chromosome:CEL140:II:10584255:10592469:1 11/11 None
GENEFINDER00000002499 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10587954:10592469:1 11/11 None
C14A4.4b ENSEMBL cdna:known chromosome:CEL140:II:10587953:10592556:1 gene:C14A4.4 11/11 None
C14A4.4a ENSEMBL cdna:known chromosome:CEL140:II:10587954:10592517:1 gene:C14A4.4 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:10587950-10592466(+) 100.0 100.0
Public Domain and Genome References
Ensembl C14A4.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD59140 Hypothetical protein C14A4.4b [Caenorhabditis elegans] ref|NP_871964.1| Cell-death-Related Nuclease family member (crn-3) [Caenorhabditis elegans] 0.0
blast CAA90108 Hypothetical protein C14A4.4a [Caenorhabditis elegans] ref|NP_496283.1| Cell-death-Related Nuclease family member (crn-3) [Caenorhabditis elegans] gb|AAP57299.1| cell death-related nuclease 3 [Caenorhabditis elegans] 0.0
blast CAE59646 Hypothetical protein CBG03060 [Caenorhabditis briggsae] 0.0
blast CAA90107 Hypothetical protein C14A4.3 [Caenorhabditis elegans] ref|NP_496282.2| C14A4.3 [Caenorhabditis elegans] sp|P54002|YTH3_CAEEL Putative glycosyl transferase C14A4.3 in chromosome II 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002121 EMBL-EBI HRDC domain 1.5E-27
Pfam IPR005599 EMBL-EBI Plasmid Maintenance Protein 1.0E-126
Pfam IPR002562 EMBL-EBI 3-5 exonuclease 2.0E-75
Pfam IPR002121 EMBL-EBI HRDC domain 1.5E-27
Pfam IPR002562 EMBL-EBI 3-5 exonuclease 2.0E-75
Pfam IPR002562 EMBL-EBI 3-5 exonuclease 1.9E-42
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000002485 9 109-126,131-153,165-187,207-229,242-264,305-327,339-361,371-390,403-422
Sequence
Target Sequence 
>C. ELEGANS:189609_S_AT
gatctaccgaagactatgttctcacatcatgatgctccgattaatagaaaacctgaattc
gatgcgaagcttctaaacgttgatacactgaagctggtcccagatgatccgaacaagccg
aaagatccagaaccttcaccaatggaagaatcttcatcggaacctcaaatcttcgatcca
tctcgttttaccgacgaccagctactgtcaaagaaggcaatgaaaagaaagagagatgct
gctcgacgaaatatagatgtttctgttgtgctcggcgagtcgtcgagtagttcagatcca
aaaaagaaaaaatctgatgatgatgctcccgttgaagattttgattatgaaaaagctgat
agtagtgcatttgaaaaacctgttcgagacaacaacgccgatttcgatccattc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCTACCGAAGACTATGTTCTCAC 24 421 2137 Antisense
GTTCTCACATCATGATGCTCCGATT 497 441 2154 Antisense
CGTTGATACACTGAAGCTGGTCCCA 497 247 2214 Antisense
TGGTCCCAGATGATCCGAACAAGCC 16 551 2231 Antisense
AAAGATCCAGAACCTTCACCAATGG 421 123 2257 Antisense
GGAAGAATCTTCATCGGAACCTCAA 99 529 2280 Antisense
TCGGAACCTCAAATCTTCGATCCAT 212 607 2293 Antisense
AATCTTCGATCCATCTCGTTTTACC 333 169 2304 Antisense
TTTACCGACGACCAGCTACTGTCAA 674 673 2323 Antisense
TCTGATGATGATGCTCCCGTTGAAG 255 609 2449 Antisense
CAACAACGCCGATTTCGATCCATTC 395 189 2526 Antisense
Sequence Source Affymetrix Proprietary Database