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[188184_s_at]

Description T21D12.4 /REP_DB=WormBase Gene ID /WP=CE18268 /GEN=pat-6 /TR=O16785 /GB=AAC48090.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 21      4grp_highest_8_8 > 08      4grp_high_8_8 > 53      6grp_highest_nonorm > 23      6grp_total > 31      4grp_total > 51      6grp_cgc > 61      6grp_high1_sub > 03      6grp_cgc_sub > De      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2093
1 2 3 4 range
A 1753.1
(-0.6)
P 		2963.6
(3)
P 		2428.3
(1.4)
P 		917.7
(-3)
P 		2046
B 1791.9
(-0.2)
P 		2858.4
(3)
P 		2798.6
(2.8)
P 		875.9
(-3)
P 		1983
C 1793.7
(0.5)
P 		2451
(3)
P 		2276.4
(2.3)
P 		870.7
(-3)
P 		1580
avr 1779.6
(-0.1) 		2757.7
(3) 		2501.1
(2.2) 		888.1
(-3) 		1870

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1791
1 2 3 4 5 6 range
A 2445.4
(2.3)
P 		2538.2
(2.7)
P 		2611.1
(3)
P 		2516.2
(2.6)
P 		1963.5
(0.2)
P 		1220.2
(-3)
P 		1391
B 2315.4
(1.1)
P 		2439.8
(1.5)
P 		2867.4
(3)
P 		2418.9
(1.4)
P 		1813.7
(-0.7)
P 		1147.2
(-3)
P 		1720
C 2081.9
(0.8)
P 		2469.6
(2.3)
P 		2657
(3)
P 		2566.4
(2.7)
P 		1858.4
(-0)
P 		1076.4
(-3)
P 		1581
avr 2280.9
(1.3) 		2482.5
(2.1) 		2711.8
(3) 		2500.5
(2.2) 		1878.5
(-0.2) 		1147.9
(-3) 		1564
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 659
1 2 3 4 range
A 638.3
(2.9)
P 		643.3
(3)
P 		634.8
(2.9)
P 		134.3
(-3)
P 		509
B 571.4
(1.4)
P 		705.9
(3)
P 		648.5
(2.3)
P 		186.7
(-3)
P 		519
C 593.8
(1.1)
P 		704.7
(2.2)
P 		793.4
(3)
P 		146.8
(-3)
P 		647
avr 601.2
(2) 		684.6
(2.9) 		692.2
(3) 		155.9
(-3) 		536

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 606
1 2 3 4 5 6 range
A 450.8
(-1.5)
P 		902.7
(3)
P 		568.6
(-0.3)
P 		638.2
(0.4)
P 		592.5
(-0.1)
P 		297.1
(-3)
P 		606
B 805.7
(2.9)
P 		812.1
(3)
P 		696.3
(1.2)
P 		640.7
(0.3)
P 		736.9
(1.8)
P 		427.8
(-3)
P 		384
C 771.7
(3)
P 		753.6
(2.7)
P 		676.3
(1.6)
P 		516.1
(-0.7)
P 		601.3
(0.5)
P 		360.3
(-3)
P 		411
avr 676.1
(1.1) 		822.8
(3) 		647.1
(0.7) 		598.3
(0.1) 		643.6
(0.7) 		361.7
(-3) 		461
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188184_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10464
Sequence Type Exemplar sequence
Representative Public ID T21D12.4 NCBI
Target Description T21D12.4 /REP_DB=WormBase Gene ID /WP=CE18268 /GEN=pat-6 /TR=O16785 /GB=AAC48090.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=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_067490(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067490 NCBI Caenorhabditis elegans Paralysed Arrest at Two-fold family member (pat-6) (pat-6) mRNA, complete cds. 11/11 None
SNAP00000019185 ENSEMBL cdna:SNAP chromosome:CEL140:IV:260200:264224:-1 10/11 None
GENEFINDER00000019203 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:260056:264224:-1 10/11 None
T21D12.4 ENSEMBL cdna:known chromosome:CEL140:IV:261899:264232:-1 gene:T21D12.4 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
chrIV:262008-264224(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pat-6
Ensembl T21D12.4
Entrez Gene 176848 Entrez gene
SwissProt O16785 EMBL-EBI
WormBase CE18268 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1584141_AT similar to parvin, beta isoform b cfa
CANINE_2:CFA.21095.1.S1_S_AT similar to parvin, beta isoform b cfa
CANINE_2:CFAAFFX.2237.1.S1_S_AT similar to parvin, beta isoform b cfa
DROSOPHILA_2:1638290_AT dm
DROSGENOME1:145393_AT dm
CHICKEN:GGA.16689.1.S1_S_AT similar to parvin, beta; CGI-56 protein; beta-parvin; affixin gga
CHICKEN:GGAAFFX.24377.2.S1_S_AT similar to parvin, beta; CGI-56 protein; beta-parvin; affixin gga
HG-U133_PLUS_2:204629_AT parvin, beta hs
HG-U133A_2:204629_AT parvin, beta hs
HG-U133A:204629_AT parvin, beta hs
HG-U133A_2:37966_AT parvin, beta hs
HG-FOCUS:37966_AT parvin, beta hs
HG-U133_PLUS_2:37966_AT parvin, beta hs
HG-U133A:37966_AT parvin, beta hs
HG-U95AV2:37966_AT parvin, beta hs
HU35KSUBA:RC_AA432178_AT parvin, beta hs
HU35KSUBA:W86706_AT parvin, beta hs
HU35KSUBC:RC_N73272_AT parvin, beta hs
U133_X3P:G7019346_3P_X_AT parvin, beta hs
U133_X3P:G7019346_3P_AT parvin, beta hs
U133_X3P:HS.8836.1.S1_3P_AT parvin, beta hs
U133_X3P:4876812C_3P_X_AT parvin, beta hs
U133_X3P:4876812C_3P_AT parvin, beta hs
U133_X3P:4876811C_3P_X_AT parvin, beta hs
U133_X3P:37966_3P_AT parvin, beta hs
HG-U133A_2:216253_S_AT parvin, beta hs
HG-U133_PLUS_2:216253_S_AT parvin, beta hs
HG-U133A:216253_S_AT parvin, beta hs
HG-U133A_2:216254_AT parvin, beta hs
HG-U133_PLUS_2:216254_AT parvin, beta hs
HG-U133A:216254_AT parvin, beta hs
HG-U133A_2:37965_AT parvin, beta hs
HG-FOCUS:37965_AT parvin, beta hs
HG-U133_PLUS_2:37965_AT parvin, beta hs
HG-U133A:37965_AT parvin, beta hs
HG-U95AV2:37965_AT parvin, beta hs
HG-U95C:63501_AT Parvin, beta hs
MOUSE430_2:1422060_AT parvin, beta mm
MOE430A:1422060_AT parvin, beta mm
MOUSE430A_2:1422060_AT parvin, beta mm
MG-U74BV2:113568_AT Parvin, beta (Parvb), mRNA mm
MOE430B:1438672_AT Parvin, beta (Parvb), mRNA mm
MOUSE430_2:1438672_AT Parvin, beta (Parvb), mRNA mm
MU19KSUBA:TC23551_AT Parvin, beta (Parvb), mRNA mm
MU19KSUBA:TC23551_G_AT Parvin, beta (Parvb), mRNA mm
RAE230A:1389919_AT parvin, beta (predicted) rn
RAT230_2:1389919_AT parvin, beta (predicted) rn
RAE230B:1381342_AT parvin, beta (predicted) rn
RAT230_2:1381342_AT parvin, beta (predicted) rn
RAE230B:1380511_AT Parvin, beta (predicted) rn
RAT230_2:1380511_AT Parvin, beta (predicted) rn
RAE230B:1381044_AT Parvin, beta (predicted) rn
RAT230_2:1381044_AT Parvin, beta (predicted) rn
RAE230A:1388891_AT Parvin, beta (predicted) rn
RAT230_2:1388891_AT Parvin, beta (predicted) rn
RAE230B:1392098_AT Parvin, beta (predicted) rn
RAT230_2:1392098_AT Parvin, beta (predicted) rn
RG-U34B:RC_AA899471_AT Parvin, beta (predicted) rn
RG-U34B:RC_AA943244_AT Parvin, beta (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAC48090 Paralysed arrest at two-fold protein 6 [Caenorhabditis elegans] ref|NP_499891.1| Paralysed Arrest at Two-fold family member (pat-6) [Caenorhabditis elegans] sp|O16785|PARV_CAEEL Paralyzed arrest at two-fold protein 6 (Actopaxin homolog) (Parvin-like protein) 0.0
blast CAE74731 Hypothetical protein CBG22549 [Caenorhabditis briggsae] 1.0E-173
blast AAC48091 Hypothetical protein T21D12.3 [Caenorhabditis elegans] ref|NP_499890.2| T21D12.3 [Caenorhabditis elegans] 1.0E-168
blast AAC48091 Hypothetical protein T21D12.3 [Caenorhabditis elegans] ref|NP_499890.2| T21D12.3 [Caenorhabditis elegans] 1.0E-165
blast CAE74731 Hypothetical protein CBG22549 [Caenorhabditis briggsae] 1.0E-164
Protein Domains
Database ID Description E-Value
Pfam IPR001715 EMBL-EBI Calponin-like actin-binding 1.5E-8
Pfam IPR001715 EMBL-EBI Calponin-like actin-binding 1.0E-15
Pfam IPR001202 EMBL-EBI WW/Rsp5/WWP domain 2.5E-6
Pfam IPR001715 EMBL-EBI Calponin-like actin-binding 4.3E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000019203 1 680-702
Sequence
Target Sequence 
>C. ELEGANS:188184_S_AT
agccaatcgaattctcggacagccaagagaacaagagaaatggtctgcggatcttattca
tcaaaaggacttcactgccatcatccagctcctggtgcttcttgctcttcactaccgtgc
tccagttcgattcccagataacgtggttgctaacgttgtggtggctcaaaaggaacatgg
tcaagtgaagacccatcgaattactgagcaaatcactacagttcaaactgagttggcacc
gaagggcactcgtgacgcatttgatacgcttttcgattatggacccgataagttggctca
tgtgaagacatctttgttggctttttgtaataagcatttgaataaaattaatctggaagt
gtctgatttggataatcaattccaggacggagttttcttagttctcctagtgggacttct
tgaaggttatttcgtcccgctttaccattttaatctccaagttcaaagccacgaggagaa
agtaaaaaatgtgcaatttgcgttcaaacttatggaagacactggccttgagaagcctag
atctcgtgttcaggatattgccaatggagatgttaagagcactctccgtcttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCCAATCGAATTCTCGGACAGCCA 32 85 513 Antisense
ATGGTCTGCGGATCTTATTCATCAA 143 51 552 Antisense
TCAAAAGGACTTCACTGCCATCATC 199 629 573 Antisense
CTCCAGTTCGATTCCCAGATAACGT 50 237 632 Antisense
GTGGTTGCTAACGTTGTGGTGGCTC 656 487 655 Antisense
GAAGGGCACTCGTGACGCATTTGAT 564 335 753 Antisense
GATACGCTTTTCGATTATGGACCCG 567 423 775 Antisense
TGGACCCGATAAGTTGGCTCATGTG 114 549 792 Antisense
TAGTTCTCCTAGTGGGACTTCTTGA 365 633 911 Antisense
GAAGCCTAGATCTCGTGTTCAGGAT 417 345 1044 Antisense
GATGTTAAGAGCACTCTCCGTCTTC 151 409 1081 Antisense
Sequence Source Affymetrix Proprietary Database