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[189696_s_at] Channel Protein

Description R05G6.7 /REP_DB=WormBase Gene ID /WP=CE07420 /TR=SW:Q21752 /GB=AAB00622.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=Channel Protein
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 20      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 07      6grp_total > 42      4grp_total > 59      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11702
1 2 3 4 range
A 16373
(1.5)
P 		19054.2
(3)
P 		19034.5
(3)
P 		8613.6
(-3)
P 		10441
B 16518.4
(1.3)
P 		17823.5
(2)
P 		19757.5
(3)
P 		8055.5
(-3)
P 		11702
C 14903.5
(1.2)
P 		17810.9
(3)
P 		16853.7
(2.4)
P 		8060.8
(-3)
P 		9750
avr 15931.6
(1.5) 		18229.5
(2.8) 		18548.6
(3) 		8243.3
(-3) 		10305

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8734
1 2 3 4 5 6 range
A 17048.5
(2.9)
P 		14935.7
(0.7)
P 		17181.9
(3)
P 		15622.8
(1.4)
P 		11301.7
(-3)
P 		11545
(-2.8)
P 		5880
B 15729.7
(2.3)
P 		14115.5
(0.9)
P 		16601.5
(3)
P 		13796.4
(0.7)
P 		10180.3
(-2.3)
P 		9334
(-3)
P 		7268
C 13225.3
(-0.4)
P 		13335.1
(-0.3)
P 		18068.3
(3)
P 		14631.8
(0.6)
P 		11941.2
(-1.2)
P 		9398.5
(-3)
P 		8670
avr 15334.5
(1.4) 		14128.8
(0.4) 		17283.9
(3) 		14683.7
(0.8) 		11141.1
(-2.1) 		10092.5
(-3) 		7191
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4701
1 2 3 4 range
A 5961.4
(3)
P 		4136.2
(0.7)
P 		4976
(1.7)
P 		1260.9
(-3)
P 		4701
B 5267.6
(3)
P 		4402
(1.5)
P 		4578.3
(1.8)
P 		1716.6
(-3)
P 		3551
C 4933.5
(1.8)
P 		5120.7
(2)
P 		5874
(3)
P 		1359.2
(-3)
P 		4515
avr 5387.5
(3) 		4553
(1.7) 		5142.8
(2.6) 		1445.6
(-3) 		3942

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2662
1 2 3 4 5 6 range
A 3142.8
(-2.2)
P 		5311.9
(3)
P 		3741.8
(-0.8)
P 		3962.3
(-0.2)
P 		3410.4
(-1.6)
P 		2810.8
(-3)
P 		2501
B 5473.2
(3)
P 		4698.5
(0.7)
P 		4031.3
(-1.3)
P 		3654.2
(-2.5)
P 		4136.1
(-1)
P 		3480.6
(-3)
P 		1993
C 4902
(3)
P 		4069
(0.4)
P 		4598.7
(2.1)
P 		2942.5
(-3)
P 		3864
(-0.2)
P 		3146.2
(-2.4)
P 		1960
avr 4506
(2.3) 		4693.1
(3) 		4123.9
(0.8) 		3519.7
(-1.6) 		3803.5
(-0.4) 		3145.9
(-3) 		1547
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189696_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8414
Sequence Type Exemplar sequence
Representative Public ID R05G6.7 NCBI
Target Description R05G6.7 /REP_DB=WormBase Gene ID /WP=CE07420 /TR=SW:Q21752 /GB=AAB00622.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=Channel 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_068810(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068810 NCBI Caenorhabditis elegans R05G6.7 (R05G6.7) mRNA, complete cds. 10/11 None
SNAP00000020434 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7506578:7507872:-1 11/11 None
GENEFINDER00000020453 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7506578:7507872:-1 11/11 None
R05G6.7.2 ENSEMBL cdna:known chromosome:CEL140:IV:7506417:7507881:-1 gene:R05G6.7 10/11 None
R05G6.7.1 ENSEMBL cdna:known chromosome:CEL140:IV:7506417:7507875:-1 gene:R05G6.7 10/11 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:7506583-7507878(-) 100.0 100.0
Public Domain and Genome References
Gene Title Channel Protein
Ensembl R05G6.7
Entrez Gene 177524 Entrez gene
SwissProt Q21752 EMBL-EBI
WormBase CE29443 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1587433_S_AT similar to voltage-dependent anion channel 2 cfa
CANINE:1587432_AT similar to voltage-dependent anion channel 2 cfa
CANINE_2:CFA.796.1.S1_AT similar to voltage-dependent anion channel 2 cfa
CANINE_2:CFAAFFX.23653.1.S1_S_AT similar to voltage-dependent anion channel 2 cfa
DROSOPHILA_2:1622947_S_AT porin dm
DROSGENOME1:142269_AT porin dm
CHICKEN:GGA.4084.1.S1_AT voltage-dependent anion channel 2 gga
CHICKEN:GGA.4084.1.S2_AT voltage-dependent anion channel 2 gga
HG-U133_PLUS_2:211662_S_AT voltage-dependent anion channel 2 hs
HG-U133A:211662_S_AT voltage-dependent anion channel 2 hs
HG-U133A_2:211662_S_AT voltage-dependent anion channel 2 hs
HG-U95AV2:37696_AT voltage-dependent anion channel 2 hs
HG-U95AV2:37697_S_AT voltage-dependent anion channel 2 hs
HU35KSUBD:RC_D51171_AT voltage-dependent anion channel 2 hs
HUGENEFL:L08666_AT voltage-dependent anion channel 2 hs
U133_X3P:G190199_3P_S_AT voltage-dependent anion channel 2 hs
U133_X3P:G190199_3P_S_AT similar to voltage-dependent anion channel 2 hs
MOE430A:1415990_AT voltage-dependent anion channel 2 mm
MOUSE430_2:1415990_AT voltage-dependent anion channel 2 mm
MOUSE430A_2:1415990_AT voltage-dependent anion channel 2 mm
MU11KSUBA:U30838_S_AT voltage-dependent anion channel 2 mm
MU11KSUBB:MSA.10696.0_F_AT voltage-dependent anion channel 2 mm
MG-U74AV2:161255_AT voltage-dependent anion channel 2 mm
MG-U74AV2:160529_R_AT voltage-dependent anion channel 2 mm
MG-U74BV2:105124_AT Voltage-dependent anion channel 2, mRNA (cDNA clone MGC:5799 IMAGE:3601668) mm
RG-U34B:RC_AI030961_AT voltage-dependent anion channel 2 rn
RAE230A:1369933_AT voltage-dependent anion channel 2 rn
RAT230_2:1369933_AT voltage-dependent anion channel 2 rn
RAE230B:1379796_AT Voltage-dependent anion channel 2 rn
RAT230_2:1379796_AT Voltage-dependent anion channel 2 rn
RAE230B:1396688_AT Voltage-dependent anion channel 2 rn
RAT230_2:1396688_AT Voltage-dependent anion channel 2 rn
YEAST_2:1769891_AT Mitochondrial porin (voltage-dependent anion channel), outer membrane protein required for the maintenance of mitochondrial osmotic stability and mitochondrial membrane permeability Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6820 anion transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5741 mitochondrial outer membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8308 voltage-gated ion-selective channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast T29355 hypothetical protein R05G6.7 - Caenorhabditis elegans 1.0E-176
blast NP_501211 R05G6.7 [Caenorhabditis elegans] gb|AAB00622.2| Hypothetical protein R05G6.7 [Caenorhabditis elegans] sp|Q21752|VDAC_CAEEL Probable voltage-dependent anion-selective channel 1.0E-159
blast T29355 hypothetical protein R05G6.7 - Caenorhabditis elegans 1.0E-155
blast NP_501211 R05G6.7 [Caenorhabditis elegans] gb|AAB00622.2| Hypothetical protein R05G6.7 [Caenorhabditis elegans] sp|Q21752|VDAC_CAEEL Probable voltage-dependent anion-selective channel 1.0E-155
Protein Domains
Database ID Description E-Value
Pfam IPR001925 EMBL-EBI Porin, eukaryotic type 3.0E-123
Pfam IPR001925 EMBL-EBI Porin, eukaryotic type 3.8E-58
Pfam IPR001925 EMBL-EBI Porin, eukaryotic type 5.2E-64
Sequence
Target Sequence 
>C. ELEGANS:189696_S_AT
tgccccacacgccggaaagagaagcggaaaagtgaagctcgactgggctctcccaactgc
tagagtgagtagtcttgtacatattttgggtgataagattggcgaagctcgtctcaagct
tgactggaagcatgattgtttcagggttaccgctgatgttggagtcacctctgctccagt
tatcaacgctgccggagtcttctcccgtgacggatggctcatcggagctgccgccacctt
cgattcttcatcgaataagttggcagccacttctttggctttcggacactccactccaca
atacaccctccactctttcgttattaactcaaccgacttcggagcttccctttaccacaa
ggttgcctccaacgtcgaggttggaactcaactcggatggaaggttggtggaaacggagc
tgactacgctctcgccaccaagtatgctccaagccgtgaccttactgtccgcgccaaggt
caacagctcttcccaagttgccgttgctgccacacactccttgtctccagctcttaagct
gacactttccactcaattcaaccttgctgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCCCCACACGCCGGAAAGAGAAGC 541 585 324 Antisense
AAAGTGAAGCTCGACTGGGCTCTCC 401 121 352 Antisense
GGCTCTCCCAACTGCTAGAGTGAGT 131 539 369 Antisense
CGCTGATGTTGGAGTCACCTCTGCT 562 253 474 Antisense
CAGTTATCAACGCTGCCGGAGTCTT 495 205 500 Antisense
CCTCCACTCTTTCGTTATTAACTCA 467 267 630 Antisense
TAACTCAACCGACTTCGGAGCTTCC 380 639 648 Antisense
GAAACGGAGCTGACTACGCTCTCGC 452 357 734 Antisense
CACCAAGTATGCTCCAAGCCGTGAC 533 199 759 Antisense
AGCTCTTAAGCTGACACTTTCCACT 415 79 852 Antisense
TTTCCACTCAATTCAACCTTGCTGC 177 669 869 Antisense
Sequence Source Affymetrix Proprietary Database