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[173237_s_at]

Description C55935_rc /REP_DB=TREMBL Accession /GB=C55935 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk231g5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 14      4grp_highest_8_8 > 27      4grp_high_8_8 > 63      6grp_highest_nonorm > 75      6grp_total > 04      4grp_total > 48      6grp_highest_sub > De      6grp_cgc > 42      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 396
1 2 3 4 range
A 696.4
(0.3)
P 		625
(-1.6)
P 		800.2
(3)
P 		572.4
(-3)
P 		228
B 665.1
(-2.4)
P 		634.4
(-3)
P 		921.7
(3)
P 		797
(0.4)
P 		287
C 693
(2.7)
P 		587.2
(-0.9)
P 		702.9
(3)
P 		525.7
(-3)
P 		177
avr 684.8
(-0.8) 		615.5
(-3) 		808.3
(3) 		631.7
(-2.5) 		193

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 485
1 2 3 4 5 6 range
A 720.7
(-1.4)
P 		708.4
(-1.8)
P 		811.9
(2.1)
P 		834.2
(3)
P 		761.7
(0.2)
P 		678.1
(-3)
P 		156
B 905.8
(0.6)
P 		1052.3
(3)
P 		795.2
(-1.3)
P 		770.2
(-1.7)
P 		779.5
(-1.5)
P 		689.8
(-3)
P 		363
C 1056.7
(3)
P 		849.7
(0.4)
P 		693.2
(-1.5)
P 		638.2
(-2.2)
P 		983.3
(2.1)
P 		572.1
(-3)
P 		485
avr 894.4
(3) 		870.1
(2.4) 		766.8
(-0.1) 		747.5
(-0.6) 		841.5
(1.7) 		646.7
(-3) 		248
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 170
1 2 3 4 range
A 253.6
(3)
P 		135.7
(-1.2)
P 		209.2
(1.4)
P 		83.8
(-3)
P 		170
B 212.1
(2.8)
P 		156.7
(-3)
P 		213.6
(3)
P 		169.9
(-1.6)
P 		57
C 229.4
(2.4)
P 		168.8
(0.1)
P 		245
(3)
P 		88.6
(-3)
P 		156
avr 231.7
(3) 		153.7
(-1) 		222.6
(2.5) 		114.1
(-3) 		118

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 263
1 2 3 4 5 6 range
A 132.9
(-3)
P 		251.9
(3)
P 		176.8
(-0.8)
P 		211.6
(1)
P 		229.8
(1.9)
P 		165.1
(-1.4)
P 		119
B 315.2
(1.7)
P 		350.3
(3)
P 		193.1
(-3)
P 		204
(-2.6)
P 		316.7
(1.7)
P 		257.2
(-0.6)
P 		157
C 391.7
(3)
P 		259.3
(-0)
P 		176.4
(-1.9)
P 		128.4
(-3)
P 		318.2
(1.3)
P 		191.5
(-1.6)
P 		263
avr 279.9
(2.5) 		287.2
(2.9) 		182.1
(-3) 		181.3
(-3) 		288.2
(3) 		204.6
(-1.7) 		107
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173237_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27946
Sequence Type Exemplar sequence
Representative Public ID C55935 NCBI
Target Description C55935_rc /REP_DB=TREMBL Accession /GB=C55935 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk231g5 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_067681(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067681 NCBI Caenorhabditis elegans CaLPain family member (clp-7) (clp-7) mRNA, complete cds. 11/11 A 
SNAP00000027309 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1431319:1438372:-1 11/11 None
GENEFINDER00000027324 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1427491:1440564:-1 11/11 None
Y77E11A.11.1 ENSEMBL cdna:known chromosome:CEL140:IV:1435474:1445992:-1 gene:Y77E11A.11 11/11 None
Y77E11A.11.2 ENSEMBL cdna:known chromosome:CEL140:IV:1435626:1446026:-1 gene:Y77E11A.11 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
chrIV:1435537-1437148(-) 99.01 99.01
Public Domain and Genome References
Gene Title
Gene Symbol clp-7
Ensembl Y77E11A.11
Entrez Gene 176953 Entrez gene
SwissProt Q9N4B1 EMBL-EBI
WormBase CE25612 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.25167.1.S1_AT similar to calpain 8 cfa
CANINE_2:CFAAFFX.25167.1.S1_S_AT similar to calpain 8 cfa
CANINE_2:CFAAFFX.25171.1.S1_AT similar to calpain 8 cfa
CHICKEN:GGA.6487.1.S1_AT similar to calpain 8 gga
CHICKEN:GGAAFFX.22908.2.S1_AT similar to calpain 8 gga
CHICKEN:GGAAFFX.22908.2.S1_S_AT similar to calpain 8 gga
CHICKEN:GGAAFFX.22908.3.S1_S_AT similar to calpain 8 gga
CHICKEN:GGAAFFX.5920.1.S1_S_AT similar to calpain 8 gga
MOE430A:1421634_AT calpain 8 mm
MOUSE430_2:1421634_AT calpain 8 mm
MOUSE430A_2:1421634_AT calpain 8 mm
MOUSE430_2:1425916_AT calpain 8 mm
MOE430A:1425916_AT calpain 8 mm
MOUSE430A_2:1425916_AT calpain 8 mm
MG-U74CV2:170523_I_AT calpain 8 mm
RAT230_2:1387991_AT calpain 8 rn
RAE230A:1387991_AT calpain 8 rn
RN-U34:D14478_S_AT calpain 8 rn
RG-U34A:D14478_S_AT calpain 8 rn
RN-U34:D14480_AT calpain 8 rn
RG-U34A:D14480_AT calpain 8 rn
RAE230A:1387292_S_AT calpain 8 rn
RAT230_2:1387292_S_AT calpain 8 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6508 proteolysis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4197 cysteine-type endopeptidase activity inferred from electronic annotation QuickGO AmiGO
4198 calpain activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF36080 Calpain family protein 7 [Caenorhabditis elegans] ref|NP_500082.1| CaLPain family member (clp-7) [Caenorhabditis elegans] 0.0
blast CAE68248 Hypothetical protein CBG13923 [Caenorhabditis briggsae] 0.0
blast AAF36079 Calpain family protein 6 [Caenorhabditis elegans] ref|NP_500081.1| CaLPain family member (clp-6) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.0E-126
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 2.7E-50
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 3.4E-57
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.0E-126
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 2.7E-50
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.6E-42
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.5E-69
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.0E-126
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 2.7E-50
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.6E-42
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 6.8E-10
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 3.9E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000027324 3 7-26,36-58,457-479
Sequence
Target Sequence 
>C. ELEGANS:173237_S_AT
tcgggacaggcgatccatgacgtcagcgggcagaagccgatagctcgtacaaaagtcttt
attaacatgcgagaggttactgtacgcttccgggtcccgcctggacaatacgtcatcgtt
ccgtgcacatttgatgctcatgatgacgcctcgttcttgttgagaatcttttccaatgcg
gaattccagacga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGGGACAGGCGATCCATGACGTCA 707 605 15 Antisense
TCCATGACGTCAGCGGGCAGAAGCC 587 587 28 Antisense
GCGGGCAGAAGCCGATAGCTCGTAC 206 293 40 Antisense
GCCGATAGCTCGTACAAAAGTCTTT 15 281 50 Antisense
GCGAGAGGTTACTGTACGCTTCCGG 536 251 83 Antisense
CCCGCCTGGACAATACGTCATCGTT 625 259 110 Antisense
TGGACAATACGTCATCGTTCCGTGC 300 547 116 Antisense
CGTTCCGTGCACATTTGATGCTCAT 688 247 131 Antisense
ATGACGCCTCGTTCTTGTTGAGAAT 544 45 157 Antisense
TGTTGAGAATCTTTTCCAATGCGGA 75 563 172 Antisense
TTTTCCAATGCGGAATTCCAGACGA 502 673 183 Antisense
Sequence Source Affymetrix Proprietary Database