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[178027_at]

Description R13H4.1 /REP_DB=WormBase Gene ID /WP=CE12800 /TR=P90948 /GB=CAB04654.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 37      4grp_high_8_8 > 17      6grp_highest_nonorm > 90      6grp_total > 27      4grp_total > 30      6grp_highest_sub > Cu      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 194
1 2 3 4 range
A 277.7
(3)
P 		127.2
(-2.1)
P 		99.9
(-3)
P 		209.4
(0.7)
P 		178
B 275.7
(3)
P 		115
(-2.2)
A 		89.8
(-3)
P 		207.9
(0.8)
P 		186
C 270.9
(3)
P 		135.1
(-1.4)
A 		84.2
(-3)
P 		219.6
(1.4)
P 		187
avr 274.8
(3) 		125.8
(-1.9) 		91.3
(-3) 		212.3
(1) 		184

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 143
1 2 3 4 5 6 range
A 235.5
(3)
P 		202.5
(1.5)
P 		141.1
(-1.4)
P 		105.9
(-3)
P 		149.4
(-1)
P 		118.8
(-2.4)
P 		130
B 217.3
(3)
P 		142.8
(-0.6)
P 		152.6
(-0.1)
P 		110.5
(-2.1)
P 		92.3
(-3)
P 		156.9
(0.1)
P 		125
C 182.8
(1.6)
P 		160.3
(0.1)
P 		143.6
(-1.1)
P 		133.3
(-1.8)
P 		115.3
(-3)
P 		202.4
(3)
P 		87
avr 211.9
(3) 		168.5
(0.3) 		145.8
(-1.2) 		116.6
(-3) 		119
(-2.8) 		159.4
(-0.3) 		95
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 101.1
(3)
P 		27.6
(-2.9)
P 		26.1
(-3)
P 		30.7
(-2.6)
P 		75
B 87.9
(3)
P 		28.4
(-2.3)
A 		20.8
(-3)
P 		44.3
(-0.9)
P 		67
C 89.7
(3)
P 		38.8
(-2.1)
A 		29.3
(-3)
P 		37
(-2.2)
P 		60
avr 92.9
(3) 		31.6
(-2.4) 		25.4
(-3) 		37.3
(-1.9) 		68

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 49
1 2 3 4 5 6 range
A 43.4
(-0.8)
P 		72
(3)
P 		30.7
(-2.5)
P 		26.8
(-3)
P 		45.1
(-0.6)
P 		28.9
(-2.7)
P 		45
B 75.6
(3)
P 		47.5
(-0.6)
P 		37
(-2)
P 		29.3
(-3)
P 		37.5
(-1.9)
P 		58.5
(0.8)
P 		46
C 67.8
(3)
P 		48.9
(0.2)
P 		36.5
(-1.6)
P 		26.8
(-3)
P 		37.3
(-1.5)
P 		67.8
(3)
P 		41
avr 62.3
(3) 		56.1
(1.9) 		34.7
(-1.8) 		27.6
(-3) 		40
(-0.9) 		51.7
(1.2) 		35
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178027_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14536
Sequence Type Exemplar sequence
Representative Public ID R13H4.1 NCBI
Target Description R13H4.1 /REP_DB=WormBase Gene ID /WP=CE12800 /TR=P90948 /GB=CAB04654.1 /SUBMIT=HINXTON /CHR=5 /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_073581(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073581 NCBI Caenorhabditis elegans NePHronophthisis (human kidney disease) homolog family member (nph-4) (nph-4) mRNA, complete cds. 11/11 None
R13H4.1 ENSEMBL cdna:known chromosome:CEL140:V:11833802:11846213:-1 gene:R13H4.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000036679 3/11 Cross Hyb Matching Probes None
SNAP00000036682 6/11 Cross Hyb Matching Probes None
GENEFINDER00000036688 2/11 Cross Hyb Matching Probes None
GENEFINDER00000036689 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:11834992-11846213(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nph-4
Ensembl R13H4.1
Entrez Gene 179620 Entrez gene
SwissProt P90948 EMBL-EBI
WormBase CE38409 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.29832.1.S1_S_AT similar to nephroretinin cfa
CHICKEN:GGA.7524.1.S1_AT similar to nephrocystin-4 gga
CHICKEN:GGAAFFX.627.1.S1_S_AT similar to nephrocystin-4 gga
HG-U95AV2:37153_AT nephronophthisis 4 hs
HG-U133_PLUS_2:213471_AT nephronophthisis 4 hs
HG-U133A_2:213471_AT nephronophthisis 4 hs
HG-U133A:213471_AT nephronophthisis 4 hs
HG-U133_PLUS_2:216344_AT nephronophthisis 4 hs
HG-U133A_2:216344_AT nephronophthisis 4 hs
HG-U133A:216344_AT nephronophthisis 4 hs
HU35KSUBB:RC_Z38915_S_AT nephronophthisis 4 hs
HU35KSUBD:RC_R42233_AT nephronophthisis 4 hs
U133_X3P:HS.106487.1.S1_3P_AT nephronophthisis 4 hs
U133_X3P:HS.106487.0.S1_3P_AT nephronophthisis 4 hs
MOE430B:1431329_AT nephronophthisis 4 (juvenile) homolog (human) mm
MOUSE430_2:1431329_AT nephronophthisis 4 (juvenile) homolog (human) mm
MG-U74BV2:163995_AT nephronophthisis 4 (juvenile) homolog (human) mm
MOE430B:1434024_AT nephronophthisis 4 (juvenile) homolog (human) mm
MOUSE430_2:1434024_AT nephronophthisis 4 (juvenile) homolog (human) mm
MOE430B:1444639_AT Nephronophthisis 4 (juvenile) homolog (human) (Nphp4), mRNA mm
MOUSE430_2:1444639_AT Nephronophthisis 4 (juvenile) homolog (human) (Nphp4), mRNA mm
RAE230B:1379978_AT similar to mKIAA0673 protein rn
RAT230_2:1379978_AT similar to mKIAA0673 protein rn
Protein Similarities
Method ID Description E-Value
blast CAB04654 Hypothetical protein R13H4.1 [Caenorhabditis elegans] ref|NP_505982.2| NePHronophthisis (human kidney disease) homolog family member (nph-4) [Caenorhabditis elegans] gb|AAX56914.1| nephrocystin-4-like protein [Caenorhabditis elegans] 0.0
blast CAE75282 Hypothetical protein CBG23249 [Caenorhabditis briggsae] 0.0
blast CAH72673 nephronophthisis 4 [Homo sapiens] emb|CAI14749.1| nephronophthisis 4 [Homo sapiens] emb|CAI19892.1| nephronophthisis 4 [Homo sapiens] 3.0E-62
blast CAH72673 nephronophthisis 4 [Homo sapiens] emb|CAI14749.1| nephronophthisis 4 [Homo sapiens] emb|CAI19892.1| nephronophthisis 4 [Homo sapiens] 2.0E-56
Sequence
Target Sequence 
>C. ELEGANS:178027_AT
agtactaccaccaatggccagagacagaagagttttgtcatgtcgatgctctgatccgtc
tgtaagactgactgttcgaaatgcgacactacaacagattgttggattcacaacatattc
aggggaaacgaatgatcgaaagacgtttcttttattgatgtatagtgatcattatcaaac
aagattaatggctacctggaaaatcactattcttccattcttcaatgttgatgttcgtag
tattgttgggcaaacaactcgtcttcatttattagtgcacagaagaagcgagcatgatgg
agtgccagatgatttactgaaagtgtatacagcatctggatgtatgaaagttgtggattc
tgtgctcactgaaagaacacctacagccacaattgattttacaccaaactttattggaac
aaagaagcttgtcgtttctgttgtgaataccaatacattgaagttagaacgagggttttt
ggtttacggaaagtctgaagcgccacggattacgcagaagtttgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGTACTACCACCAATGGCCAGAGAC 169 63 3033 Antisense
GTTTTGTCATGTCGATGCTCTGATC 340 447 3064 Antisense
ATGCTCTGATCCGTCTGTAAGACTG 204 43 3078 Antisense
GACTGACTGTTCGAAATGCGACACT 494 375 3098 Antisense
GAAAATCACTATTCTTCCATTCTTC 464 353 3231 Antisense
TTGGGCAAACAACTCGTCTTCATTT 17 709 3278 Antisense
AGTTGTGGATTCTGTGCTCACTGAA 503 65 3381 Antisense
GAACACCTACAGCCACAATTGATTT 487 349 3407 Antisense
GAAGCTTGTCGTTTCTGTTGTGAAT 330 341 3456 Antisense
TACGGAAAGTCTGAAGCGCCACGGA 448 647 3517 Antisense
GCCACGGATTACGCAGAAGTTTGTC 577 273 3534 Antisense
Sequence Source Affymetrix Proprietary Database