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[175647_at] alpha-catenin

Description g2738779 /REP_DB=GenBank Identifier /GB=AF016852.1 /PROTEIN_GB=AAB94551.1 /CHR=5 /FEA=Mapped Transcript /DEF=HMP-1
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 46      4grp_highest_8_8 > 41      4grp_high_8_8 > 50      6grp_highest_nonorm > 67      6grp_total > 47      4grp_total > 53      6grp_highest_sub > Cu      6grp_cgc > 26      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 892
1 2 3 4 range
A 1590
(3)
P 		1397.8
(1.5)
P 		1207.2
(-0)
P 		831.4
(-3)
P 		759
B 1723.2
(3)
P 		1311.9
(-2.5)
P 		1277.7
(-3)
P 		1306.6
(-2.6)
P 		446
C 1410.1
(2.6)
P 		1375.5
(2.1)
P 		1443.1
(3)
P 		981.7
(-3)
P 		461
avr 1574.4
(3) 		1361.7
(0.6) 		1309.3
(0) 		1039.9
(-3) 		535

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1006
1 2 3 4 5 6 range
A 2053.2
(3)
P 		1726.7
(0.7)
P 		1209.3
(-3)
P 		1304.8
(-2.3)
P 		1702.7
(0.5)
P 		1902.1
(1.9)
P 		844
B 1966.1
(3)
P 		1635.1
(0.4)
P 		1824.7
(1.9)
P 		1715.7
(1.1)
P 		1189
(-3)
P 		1875.4
(2.3)
P 		777
C 1654.6
(0.9)
P 		1569.8
(0.4)
P 		1562.6
(0.3)
P 		1982.1
(3)
P 		1047.6
(-3)
P 		1826.3
(2)
P 		935
avr 1891.3
(3) 		1643.9
(0.4) 		1532.2
(-0.7) 		1667.5
(0.7) 		1313.1
(-3) 		1867.9
(2.8) 		578
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 457
1 2 3 4 range
A 578.9
(3)
P 		303.4
(-0.6)
P 		315.6
(-0.5)
P 		121.7
(-3)
P 		457
B 549.5
(3)
P 		324
(-2)
P 		296.1
(-2.6)
P 		278.4
(-3)
P 		271
C 466.8
(2.4)
P 		395.5
(1.1)
P 		503
(3)
P 		165.5
(-3)
P 		338
avr 531.7
(3) 		341
(-0.3) 		371.6
(0.2) 		188.5
(-3) 		343

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 436
1 2 3 4 5 6 range
A 378.5
(-1)
P 		614.1
(3)
P 		263.3
(-3)
P 		330.9
(-1.8)
P 		513.8
(1.3)
P 		463.1
(0.4)
P 		351
B 684.1
(2.6)
P 		544.3
(-0.6)
P 		443.1
(-3)
P 		454.4
(-2.7)
P 		483.1
(-2.1)
P 		699.3
(3)
P 		256
C 613.3
(3)
P 		479
(0.1)
P 		397.7
(-1.7)
P 		398.6
(-1.7)
P 		339
(-3)
P 		611.4
(3)
P 		274
avr 558.6
(2.1) 		545.8
(1.8) 		368
(-3) 		394.6
(-2.3) 		445.3
(-0.9) 		591.3
(3) 		223
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175647_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19917
Sequence Type Exemplar sequence
Representative Public ID 2738779 NCBI
Target Description g2738779 /REP_DB=GenBank Identifier /GB=AF016852.1 /PROTEIN_GB=AAB94551.1 /CHR=5 /FEA=Mapped Transcript /DEF=HMP-1
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_073584(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073584 NCBI Caenorhabditis elegans R13H4.4 (alpha-catenin) mRNA, complete cds. 11/11 A 
R13H4.4 ENSEMBL cdna:known chromosome:CEL140:V:11848465:11854752:1 gene:R13H4.4 11/11 A 
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
chrV:11848462-11854752(+) 100.0 100.0
Public Domain and Genome References
Gene Title alpha-catenin
Gene Symbol hmp-1
Ensembl R13H4.4
Entrez Gene 179624 Entrez gene
SwissProt P90947 EMBL-EBI
WormBase CE25089 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1598149_AT similar to catenin, alpha 2 cfa
CANINE_2:CFA.9512.1.A1_AT similar to catenin, alpha 2 cfa
CANINE_2:CFAAFFX.12905.1.S1_S_AT similar to catenin, alpha 2 cfa
CANINE_2:CFAAFFX.12908.1.S1_AT similar to catenin, alpha 2 cfa
CANINE_2:CFAAFFX.12938.1.S1_AT similar to catenin, alpha 2 cfa
DROSOPHILA_2:1632724_AT Catenin dm
DROSGENOME1:154527_AT Catenin dm
CHICKEN:GGA.2375.1.S1_AT catenin (cadherin-associated protein), alpha 2 gga
CHICKEN:GGA.2375.1.S2_AT catenin (cadherin-associated protein), alpha 2 gga
CHICKEN:GGAAFFX.24818.1.S1_AT catenin (cadherin-associated protein), alpha 2 gga
HG-U95AV2:208_AT catenin (cadherin-associated protein), alpha 2 hs
HC-G110:208_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U95AV2:31841_AT catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBD:RC_R37305_F_AT catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBD:RC_H16079_F_AT catenin (cadherin-associated protein), alpha 2 hs
HUGENEFL:M94151_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U133A:205373_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U133_PLUS_2:205373_AT catenin (cadherin-associated protein), alpha 2 hs
HG-FOCUS:205373_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U133A_2:205373_AT catenin (cadherin-associated protein), alpha 2 hs
U133_X3P:G7656998_3P_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U95C:54645_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U95B:42611_AT Catenin (cadherin-associated protein), alpha 2 hs
HG-U95C:66711_AT Catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBA:AA082824_AT Catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBD:RC_H10781_AT Catenin (cadherin-associated protein), alpha 2 hs
MOUSE430_2:1448895_A_AT catenin (cadherin associated protein), alpha 2 mm
MOE430A:1448895_A_AT catenin (cadherin associated protein), alpha 2 mm
MOUSE430A_2:1448895_A_AT catenin (cadherin associated protein), alpha 2 mm
MU11KSUBA:D25282_S_AT catenin (cadherin associated protein), alpha 2 mm
MG-U74AV2:92228_AT catenin (cadherin associated protein), alpha 2 mm
MG-U74AV2:92227_S_AT catenin (cadherin associated protein), alpha 2 mm
MG-U74AV2:161318_F_AT catenin (cadherin associated protein), alpha 2 mm
MU19KSUBB:TC25947_S_AT Catenin (cadherin associated protein), alpha 2 (Ctnna2), transcript variant 1, mRNA mm
RG-U34B:RC_AI058441_AT Catenin alpha 2 (predicted) rn
RG-U34C:RC_AI071716_AT Catenin alpha 2 (predicted) rn
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5913 cell-cell adherens junction inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
51015 actin filament binding traceable author statement QuickGO AmiGO
8013 beta-catenin binding inferred from physical interaction QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB61019 Hypothetical protein R13H4.4 [Caenorhabditis elegans] ref|NP_505985.1| R13H4.4 [Caenorhabditis elegans] gb|AAB94551.1| HMP-1 [Caenorhabditis elegans] 0.0
blast T24221 hypothetical protein R13H4.4 - Caenorhabditis elegans 0.0
blast CAE75281 Hypothetical protein CBG23248 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006077 EMBL-EBI Vinculin/alpha-catenin 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:175647_AT
catgtatcttcatacttttcccttccaaatctttccacacatcctttatatgcccgagtc
tttattattttctcattctttcaattctcttcagctagaaatttgtatctgtgtattttt
tgtattcatttctgtttaatgctctaaattctatcagctcatcaccgccaccattatcac
cgcatttttcatttttctcccccatgaatatcataatccatactgttgaaaatcaggtaa
ctttacatctttacaatttattttcgcactatcaacctcaccctttcaacgattttttct
gtatgattctgatttctaaactccctgatctatgtgcacaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATGTATCTTCATACTTTTCCCTTC 534 209 2821 Antisense
CTTTCCACACATCCTTTATATGCCC 324 223 2851 Antisense
TATGCCCGAGTCTTTATTATTTTCT 306 657 2869 Antisense
CATTCTTTCAATTCTCTTCAGCTAG 215 217 2894 Antisense
CTAAATTCTATCAGCTCATCACCGC 199 227 2964 Antisense
ACCATTATCACCGCATTTTTCATTT 499 87 2990 Antisense
CATTTTTCTCCCCCATGAATATCAT 499 215 3010 Antisense
ATTTATTTTCGCACTATCAACCTCA 587 13 3076 Antisense
CTCACCCTTTCAACGATTTTTTCTG 131 229 3097 Antisense
TTCTGATTTCTAAACTCCCTGATCT 44 695 3127 Antisense
AAACTCCCTGATCTATGTGCACAAG 627 127 3138 Antisense
Sequence Source GenBank