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[188979_at] calcium binding protein

Description M04F3.4 /REP_DB=WormBase Gene ID /WP=CE12418 /GB=AAK71383.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=calcium binding protein
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 38      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 76      6grp_total > 38      4grp_total > 60      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 845
1 2 3 4 range
A 1404.2
(2.5)
P 		1329.9
(1.7)
P 		1453.7
(3)
P 		880.3
(-3)
P 		573
B 1326
(0.1)
P 		1512.8
(1.5)
P 		1725.6
(3)
P 		901.1
(-3)
P 		825
C 1467.4
(2.3)
P 		1439.8
(2)
P 		1540.4
(3)
P 		944.8
(-3)
P 		596
avr 1399.2
(1.4) 		1427.5
(1.7) 		1573.2
(3) 		908.7
(-3) 		665

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1130
1 2 3 4 5 6 range
A 1620.1
(3)
P 		1114.9
(-0.4)
P 		1218.8
(0.3)
P 		732.4
(-3)
P 		927.9
(-1.7)
P 		1213.9
(0.3)
P 		888
B 1862.8
(3)
P 		978
(-2.6)
P 		1126
(-1.7)
P 		930.8
(-2.9)
P 		918.2
(-3)
P 		1393.4
(0)
P 		945
C 1499.7
(2.1)
P 		975
(-1.5)
P 		872.1
(-2.2)
P 		762.8
(-3)
P 		853.2
(-2.4)
P 		1622.2
(3)
P 		859
avr 1660.9
(3) 		1022.6
(-1.5) 		1072.3
(-1.1) 		808.7
(-3) 		899.8
(-2.4) 		1409.8
(1.2) 		852
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 408
1 2 3 4 range
A 511.3
(3)
P 		288.7
(-0.5)
P 		380
(0.9)
P 		128.9
(-3)
P 		382
B 422.8
(3)
P 		373.6
(1.7)
P 		399.9
(2.4)
P 		192
(-3)
P 		231
C 485.7
(2.2)
P 		414
(1)
P 		536.9
(3)
P 		159.3
(-3)
P 		378
avr 473.3
(3) 		358.8
(0.8) 		438.9
(2.3) 		160.1
(-3) 		313

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 495
1 2 3 4 5 6 range
A 298.7
(0.2)
P 		396.5
(3)
P 		265.4
(-0.7)
P 		185.7
(-3)
P 		280
(-0.3)
P 		295.5
(0.1)
P 		211
B 648.2
(3)
P 		325.5
(-1.8)
P 		273.4
(-2.6)
P 		246.5
(-3)
P 		373.1
(-1.1)
P 		519.6
(1.1)
P 		402
C 555.9
(3)
P 		297.5
(-0.9)
P 		222
(-2)
P 		153.4
(-3)
P 		276.1
(-1.2)
P 		543.1
(2.8)
P 		403
avr 500.9
(3) 		339.8
(-0.2) 		253.6
(-1.9) 		195.2
(-3) 		309.7
(-0.8) 		452.7
(2.1) 		306
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188979_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1738
Sequence Type Exemplar sequence
Representative Public ID M04F3.4 NCBI
Target Description M04F3.4 /REP_DB=WormBase Gene ID /WP=CE12418 /GB=AAK71383.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=calcium 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_059046(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059046 NCBI Caenorhabditis elegans M04F3.4 (M04F3.4) mRNA, complete cds. 11/11 None
SNAP00000000879 ENSEMBL cdna:SNAP chromosome:CEL140:I:4771601:4773025:-1 11/11 None
GENEFINDER00000000881 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4771601:4773025:-1 11/11 None
M04F3.4 ENSEMBL cdna:known chromosome:CEL140:I:4771842:4773025:-1 gene:M04F3.4 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
chrI:4771841-4773025(-) 100.0 100.0
Public Domain and Genome References
Gene Title calcium binding protein
Ensembl M04F3.4
Entrez Gene 187448 Entrez gene
SwissProt Q95Y96 EMBL-EBI
WormBase CE12418 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1584459_AT similar to Programmed cell death protein 6 (Probable calcium-binding protein ALG-2) (PMP41) (ALG-257) cfa
CANINE_2:CFA.8870.1.A1_AT similar to Programmed cell death protein 6 (Probable calcium-binding protein ALG-2) (PMP41) (ALG-257) cfa
CANINE_2:CFAAFFX.17246.1.S1_AT similar to Programmed cell death protein 6 (Probable calcium-binding protein ALG-2) (PMP41) (ALG-257) cfa
CANINE_2:CFAAFFX.17246.1.S1_S_AT similar to Programmed cell death protein 6 (Probable calcium-binding protein ALG-2) (PMP41) (ALG-257) cfa
CANINE_2:CFAAFFX.26015.1.S1_S_AT similar to Programmed cell death protein 6 (Probable calcium-binding protein ALG-2) (PMP41) (ALG-257) cfa
CHICKEN:GGA.10151.1.S1_AT programmed cell death 6 gga
CHICKEN:GGA.10151.1.S1_S_AT programmed cell death 6 gga
CHICKEN:GGA.12593.1.S1_AT programmed cell death 6 gga
CHICKEN:GGA.5891.1.S1_AT programmed cell death 6 gga
HG-U133_PLUS_2:203415_AT programmed cell death 6 hs
HG-FOCUS:203415_AT programmed cell death 6 hs
HG-U133A:203415_AT programmed cell death 6 hs
HG-U133A_2:203415_AT programmed cell death 6 hs
HG-U133_PLUS_2:229354_AT programmed cell death 6 hs
HG-U133B:229354_AT programmed cell death 6 hs
HU35KSUBA:RC_AA122332_AT programmed cell death 6 hs
HU35KSUBC:RC_AA406353_AT programmed cell death 6 hs
HU35KSUBC:RC_AA243595_S_AT programmed cell death 6 hs
U133_X3P:G7019484_3P_AT programmed cell death 6 hs
U133_X3P:HS2.356020.1.A1_3P_S_AT programmed cell death 6 hs
U133_X3P:HS.73251.0.A1_3P_AT programmed cell death 6 hs
U133_X3P:HS.24087.0.A1_3P_AT programmed cell death 6 hs
U133_X3P:HS.124717.0.A1_3P_AT programmed cell death 6 hs
HG-U133_PLUS_2:1568762_AT programmed cell death 6 hs
HG-U133_PLUS_2:1568763_S_AT programmed cell death 6 hs
HG-U133_PLUS_2:1568764_X_AT programmed cell death 6 hs
HG-U133_PLUS_2:1569110_X_AT programmed cell death 6 hs
HG-U133_PLUS_2:229283_AT programmed cell death 6 hs
HG-U133B:229283_AT programmed cell death 6 hs
HG-U133_PLUS_2:240931_S_AT programmed cell death 6 hs
HG-U133B:240931_S_AT programmed cell death 6 hs
HG-U95AV2:37569_AT programmed cell death 6 hs
HG-U95B:51948_AT programmed cell death 6 hs
HG-U95E:84714_AT programmed cell death 6 hs
HG-U95B:49314_AT Aryl-hydrocarbon receptor repressor hs
HG-U95B:55158_AT Aryl-hydrocarbon receptor repressor hs
HG-U95E:81063_AT Programmed cell death 6 hs
HU35KSUBC:RC_D20022_AT Aryl-hydrocarbon receptor repressor hs
HU35KSUBB:RC_W79301_AT Aryl-hydrocarbon receptor repressor hs
HU35KSUBC:RC_N79492_AT Aryl-hydrocarbon receptor repressor hs
MU11KSUBA:U49112_S_AT programmed cell death 6 mm
MU11KSUBB:MSA.9555.0_F_AT programmed cell death 6 mm
MG-U74AV2:95412_AT programmed cell death 6 mm
MOE430A:1416027_AT programmed cell death 6 mm
MOUSE430A_2:1416027_AT programmed cell death 6 mm
MOUSE430_2:1416027_AT programmed cell death 6 mm
MG-U74AV2:162490_F_AT Programmed cell death 6 (Pdcd6), mRNA mm
MG-U74CV2:168312_AT Programmed cell death 6 (Pdcd6), mRNA mm
MU19KSUBB:TC34718_AT Programmed cell death 6 (Pdcd6), mRNA mm
RG-U34C:RC_AA819488_AT programmed cell death 6 (predicted) rn
RAE230A:1388767_AT programmed cell death 6 (predicted) rn
RAT230_2:1388767_AT programmed cell death 6 (predicted) rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAE60358 Hypothetical protein CBG03955 [Caenorhabditis briggsae] 2.0E-95
blast AAK71383 Hypothetical protein M04F3.4 [Caenorhabditis elegans] ref|NP_491447.1| M04F3.4 [Caenorhabditis elegans] 2.0E-88
blast AAK71383 Hypothetical protein M04F3.4 [Caenorhabditis elegans] ref|NP_491447.1| M04F3.4 [Caenorhabditis elegans] 1.0E-82
blast CAE60358 Hypothetical protein CBG03955 [Caenorhabditis briggsae] 9.0E-81
blast XP_392209 PREDICTED: similar to apoptosis-linked gene 2 [Apis mellifera] 7.0E-60
Protein Domains
Database ID Description E-Value
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 1.4E-6
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 1.2E-5
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 1.3E-5
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.016
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.016
Sequence
Target Sequence 
>C. ELEGANS:188979_AT
atggcttttcaacaacctaacttgcaacaaatcttctcttctgtcgacaaggatcgatca
gggcaaatcagttccgatgagcttcaaactgctctctccaacggaacatggaacccattc
aatccggaaacttgccgtttaatgatcggaatgttcgactcgaatggagacggcgcaatc
aattttcaagaattccaggctctgtggagatatatcaacgactggacaaactgtttccgt
ggttttgataccgatggttcgggaaatattgataagagtgagctgaccaatgctctcaca
caatttggataccgtctctctccacaattctacaacatccttatgcacaaattcgacaga
tcccacagtaatcgaatcaatttcgacgattttatccaactttgcgtcgttcttcagac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGCTTTTCAACAACCTAACTTGC 479 51 13 Antisense
GCAACAAATCTTCTCTTCTGTCGAC 269 319 36 Antisense
GGGCAAATCAGTTCCGATGAGCTTC 497 491 73 Antisense
GATGAGCTTCAAACTGCTCTCTCCA 681 411 88 Antisense
GAACCCATTCAATCCGGAAACTTGC 294 347 123 Antisense
GGAGACGGCGCAATCAATTTTCAAG 581 519 178 Antisense
GACTGGACAAACTGTTTCCGTGGTT 463 375 232 Antisense
TGAGCTGACCAATGCTCTCACACAA 397 569 291 Antisense
ACACAATTTGGATACCGTCTCTCTC 553 111 310 Antisense
GCACAAATTCGACAGATCCCACAGT 589 317 357 Antisense
TCCAACTTTGCGTCGTTCTTCAGAC 83 589 407 Antisense
Sequence Source Affymetrix Proprietary Database