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[174615_at]

Description CEK043H3R_rc /REP_DB=TREMBL Accession /GB=D34294 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk43h3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 61      6grp_high1_10_10 > 27      4grp_highest_8_8 > 53      4grp_high_8_8 > 09      6grp_highest_nonorm > 10      6grp_total > 17      4grp_total > 23      6grp_highest_sub > De      6grp_cgc > 13      6grp_high1_sub > Cu      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1766
1 2 3 4 range
A 2385.4
(3)
P 		942.5
(-3)
P 		1006.1
(-2.7)
P 		2237.8
(2.4)
P 		1443
B 2684.8
(3)
P 		1122.5
(-2.4)
P 		953.5
(-3)
P 		2095.2
(1)
P 		1731
C 2292.8
(3)
P 		1128.4
(-2.1)
P 		918.4
(-3)
P 		1765.7
(0.7)
P 		1374
avr 2454.3
(3) 		1064.5
(-2.6) 		959.3
(-3) 		2032.9
(1.3) 		1495

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1621
1 2 3 4 5 6 range
A 2245.9
(3)
P 		1738.5
(0.8)
P 		961.4
(-2.7)
P 		891.4
(-3)
P 		1148.1
(-1.9)
P 		1251.2
(-1.4)
P 		1355
B 2349.1
(3)
P 		1501.9
(-0.1)
P 		1229.6
(-1.1)
P 		1152.3
(-1.4)
P 		727.9
(-3)
P 		1281.3
(-1)
P 		1621
C 2205.1
(3)
P 		1543.9
(0.1)
P 		1262.5
(-1.2)
P 		1236
(-1.3)
P 		852.5
(-3)
P 		1084.7
(-2)
P 		1353
avr 2266.7
(3) 		1594.8
(0) 		1151.2
(-1.9) 		1093.2
(-2.2) 		909.5
(-3) 		1205.7
(-1.7) 		1357
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 664
1 2 3 4 range
A 868.5
(3)
P 		204.6
(-3)
P 		263
(-2.5)
P 		327.6
(-1.9)
P 		664
B 856.2
(3)
P 		277.2
(-2.5)
P 		220.9
(-3)
P 		446.5
(-0.9)
P 		635
C 759
(3)
P 		324.4
(-2.7)
P 		320.1
(-2.7)
P 		297.7
(-3)
P 		461
avr 827.9
(3) 		268.7
(-3) 		268
(-3) 		357.3
(-2) 		560

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 608
1 2 3 4 5 6 range
A 414
(0)
P 		618.3
(3)
P 		209.4
(-3)
P 		226.1
(-2.8)
P 		346.4
(-1)
P 		304.6
(-1.6)
P 		409
B 817.4
(3)
P 		499.9
(-0.7)
P 		298.6
(-3)
P 		305.2
(-2.9)
P 		295.8
(-3)
P 		477.8
(-0.9)
P 		522
C 817.3
(3)
P 		471.1
(-0.7)
P 		321.3
(-2.2)
P 		248.6
(-3)
P 		275.8
(-2.7)
P 		363.1
(-1.8)
P 		569
avr 682.9
(3) 		529.8
(0.8) 		276.4
(-2.8) 		260
(-3) 		306
(-2.3) 		381.8
(-1.3) 		423
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174615_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22057
Sequence Type Exemplar sequence
Representative Public ID CEK043H3R NCBI
Target Description CEK043H3R_rc /REP_DB=TREMBL Accession /GB=D34294 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk43h3 : 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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001029712(11), NM_001029710(11), NM_001029708(11), NM_001029707(11), NM_001029713(11), NM_001029711(11), AY390539(11), AY390546(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029712 NCBI Caenorhabditis elegans SMAll family member (sma-9) (sma-9) mRNA, complete cds. 11/11 None
NM_001029710 NCBI Caenorhabditis elegans SMAll family member (sma-9) (sma-9) mRNA, complete cds. 11/11 None
NM_001029708 NCBI Caenorhabditis elegans SMAll family member (sma-9) (sma-9) mRNA, complete cds. 11/11 None
NM_001029707 NCBI Caenorhabditis elegans SMAll family member (sma-9) (sma-9) mRNA, complete cds. 11/11 None
NM_001029713 NCBI Caenorhabditis elegans SMAll family member (sma-9) (sma-9) mRNA, complete cds. 11/11 None
NM_001029711 NCBI Caenorhabditis elegans SMAll family member (sma-9) (sma-9) mRNA, complete cds. 11/11 None
AY390539 NCBI Caenorhabditis elegans isolate yk1136g02 SMA-9 class Ia (sma-9) mRNA, partial cds, alternatively spliced. 11/11 A 
AY390546 NCBI Caenorhabditis elegans isolate yk127d10 SMA-9 class IIb (sma-9) mRNA, partial cds, alternatively spliced. 11/11 A 
T05A10.1j ENSEMBL cdna:known chromosome:CEL140:X:10773014:10782854:1 gene:T05A10.1 11/11 A 
T05A10.1e ENSEMBL cdna:known chromosome:CEL140:X:10773014:10782891:1 gene:T05A10.1 11/11 A 
T05A10.1g.1 ENSEMBL cdna:known chromosome:CEL140:X:10773014:10782895:1 gene:T05A10.1 11/11 A 
T05A10.1d ENSEMBL cdna:known chromosome:CEL140:X:10773014:10782885:1 gene:T05A10.1 11/11 A 
T05A10.1i ENSEMBL cdna:known chromosome:CEL140:X:10773014:10782897:1 gene:T05A10.1 11/11 A 
T05A10.1h.3 ENSEMBL cdna:known chromosome:CEL140:X:10777824:10782893:1 gene:T05A10.1 11/11 A 
T05A10.1h.2 ENSEMBL cdna:known chromosome:CEL140:X:10778664:10782893:1 gene:T05A10.1 11/11 A 
T05A10.1h.1 ENSEMBL cdna:known chromosome:CEL140:X:10778911:10782893:1 gene:T05A10.1 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
181271 10 6 NM_001029706 194009_at (11)
NM_001029707 174615_at (11), 194009_at (11)
NM_001029708 174615_at (11), 194009_at (11)
NM_001029709 194009_at (11)
NM_001029710 174615_at (11), 194009_at (11)
NM_001029711 174615_at (11), 194009_at (11)
NM_001029712 174615_at (11), 194009_at (11)
NM_001029713 174615_at (11), 194009_at (11)
NM_171771 194009_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:10782364-10782867(+) 100.0 100.0
Public Domain and Genome References
Ensembl T05A10.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAF31489 Hypothetical protein T05A10.1i [Caenorhabditis elegans] ref|NP_001024883.1| SMAll family member (sma-9) [Caenorhabditis elegans] 0.0
blast CAF31490 Hypothetical protein T05A10.1g [Caenorhabditis elegans] ref|NP_001024881.1| SMAll family member (sma-9) [Caenorhabditis elegans] 0.0
blast CAF31491 Hypothetical protein T05A10.1d [Caenorhabditis elegans] ref|NP_001024878.1| SMAll family member (sma-9) [Caenorhabditis elegans] 0.0
blast CAF31493 Hypothetical protein T05A10.1f [Caenorhabditis elegans] ref|NP_001024880.1| SMAll family member (sma-9) [Caenorhabditis elegans] 0.0
blast CAF31492 Hypothetical protein T05A10.1e [Caenorhabditis elegans] ref|NP_001024879.1| SMAll family member (sma-9) [Caenorhabditis elegans] 0.0
blast CAF31487 Hypothetical protein T05A10.1c [Caenorhabditis elegans] ref|NP_001024877.1| SMAll family member (sma-9) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.3.1.monodomain cytochrome c All alpha proteins; Cytochrome c; Cytochrome c; monodomain cytochrome c 4.0
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 4.0E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.5E-4
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.5E-4
Sequence
Target Sequence 
>C. ELEGANS:174615_AT
tcaggtcacctagaacattccacgactattcgctctttctggtccatcattttttttgtt
atttttccgatacttgtcttgatttttcttctttcaaatatgttttaataattcatcaat
ttgtgattttacacatcggctatcaagaattgtattatcatcaccagtttttgagctagc
cgacgtcagattctagttttatctgccgggtttcacgtttcccattgatcttccaaaagg
cctgaaagccgctcacactcattagtataaaaaatatgagatattctatttgtgattgta
tatgtattttccttaattatatgtttttgttttaaatgctctgatttatcatcattctct
ttttttgtaaatacttttcctttccatcagtccatttccagtcaacatgcaatcatttct
tgtgtcagtatgctctctagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAGGTCACCTAGAACATTCCACGA 568 619 21 Antisense
GCTCTTTCTGGTCCATCATTTTTTT 361 299 52 Antisense
GATACTTGTCTTGATTTTTCTTCTT 42 425 89 Antisense
ACCAGTTTTTGAGCTAGCCGACGTC 243 85 183 Antisense
GCCGACGTCAGATTCTAGTTTTATC 615 283 199 Antisense
TAGTTTTATCTGCCGGGTTTCACGT 667 651 214 Antisense
AAAAGGCCTGAAAGCCGCTCACACT 177 133 255 Antisense
AAAGCCGCTCACACTCATTAGTATA 374 125 265 Antisense
TAAATACTTTTCCTTTCCATCAGTC 598 639 388 Antisense
ATCAGTCCATTTCCAGTCAACATGC 430 29 406 Antisense
TTCTTGTGTCAGTATGCTCTCTAGT 503 689 437 Antisense
Sequence Source Affymetrix Proprietary Database