[Home] | [Total List]

[188421_at]

Description T19E7.2 /REP_DB=WormBase Gene ID /WP=CE27591 /GEN=skn-1 /TR=SW:P34707 /GB=AAA83594.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 81      6grp_high1_10_10 > 39      4grp_highest_8_8 > 39      4grp_high_8_8 > 12      6grp_highest_nonorm > 83      6grp_total > 28      4grp_total > 13      6grp_highest_sub > Cu      6grp_cgc > 08      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 705
1 2 3 4 range
A 611.3
(-0.5)
P 		387.1
(-2.5)
P 		325.3
(-3)
P 		1009.1
(3)
P 		684
B 608.4
(-1)
P 		435
(-2.6)
P 		393
(-3)
P 		1029.9
(3)
P 		637
C 659.1
(0.1)
P 		497.8
(-1.9)
P 		414.5
(-3)
P 		888.5
(3)
P 		474
avr 626.3
(-0.5) 		440
(-2.4) 		377.6
(-3) 		975.8
(3) 		598

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 592
1 2 3 4 5 6 range
A 435.4
(-1.2)
P 		615.3
(2)
P 		331.6
(-3)
P 		452.7
(-0.9)
P 		379.6
(-2.2)
P 		674.5
(3)
P 		343
B 429.9
(3)
P 		413.9
(1.5)
P 		393.8
(-0.4)
P 		389.6
(-0.8)
P 		427.5
(2.8)
P 		366.6
(-3)
P 		63
C 877
(3)
P 		389.6
(-1.9)
P 		522.7
(-0.6)
P 		284.6
(-3)
P 		635
(0.5)
P 		426.2
(-1.6)
P 		592
avr 580.8
(3) 		472.9
(-0.2) 		416
(-1.8) 		375.6
(-3) 		480.7
(0.1) 		489.1
(0.3) 		205
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 139
1 2 3 4 range
A 222.6
(3)
P 		84
(-3)
P 		85
(-3)
P 		147.7
(-0.2)
P 		139
B 194
(1.8)
P 		107.4
(-2.2)
P 		91.1
(-3)
P 		219.5
(3)
P 		128
C 218.2
(3)
P 		143.1
(-3)
P 		144.4
(-2.9)
P 		149.8
(-2.5)
P 		75
avr 211.6
(3) 		111.5
(-2.7) 		106.8
(-3) 		172.3
(0.8) 		105

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 268
1 2 3 4 5 6 range
A 80.3
(-2.7)
P 		218.8
(3)
P 		72.2
(-3)
P 		114.8
(-1.3)
P 		114.6
(-1.3)
P 		164.2
(0.8)
P 		147
B 149.6
(1.1)
P 		137.8
(0.2)
P 		95.6
(-3)
P 		103.2
(-2.4)
P 		173.7
(3)
P 		136.7
(0.2)
P 		78
C 325.1
(3)
P 		118.9
(-1.6)
P 		133
(-1.3)
P 		57.2
(-3)
P 		205.5
(0.3)
P 		142.7
(-1.1)
P 		268
avr 185
(3) 		158.5
(1.3) 		100.3
(-2.4) 		91.7
(-3) 		164.6
(1.7) 		147.9
(0.6) 		93
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188421_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10724
Sequence Type Exemplar sequence
Representative Public ID T19E7.2 NCBI
Target Description T19E7.2 /REP_DB=WormBase Gene ID /WP=CE27591 /GEN=skn-1 /TR=SW:P34707 /GB=AAA83594.2 /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_171346(11), NM_171345(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171346 NCBI Caenorhabditis elegans SKiNhead family member (skn-1) (skn-1) mRNA, complete cds. 11/11 None
NM_171345 NCBI Caenorhabditis elegans SKiNhead family member (skn-1) (skn-1) mRNA, complete cds. 11/11 None
GENEFINDER00000009637 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:5651861:5654024:-1 11/11 None
T19E7.2c.7 ENSEMBL cdna:known chromosome:CEL140:IV:5651749:5660508:-1 gene:T19E7.2 11/11 None
T19E7.2a ENSEMBL cdna:known chromosome:CEL140:IV:5651749:5660369:-1 gene:T19E7.2 11/11 None
T19E7.2c.6 ENSEMBL cdna:known chromosome:CEL140:IV:5651749:5655893:-1 gene:T19E7.2 11/11 None
T19E7.2c.5 ENSEMBL cdna:known chromosome:CEL140:IV:5651749:5660510:-1 gene:T19E7.2 11/11 None
T19E7.2c.4 ENSEMBL cdna:known chromosome:CEL140:IV:5651749:5655895:-1 gene:T19E7.2 11/11 None
T19E7.2c.1 ENSEMBL cdna:known chromosome:CEL140:IV:5651749:5660508:-1 gene:T19E7.2 11/11 None
T19E7.2c.3 ENSEMBL cdna:known chromosome:CEL140:IV:5651749:5660508:-1 gene:T19E7.2 11/11 None
T19E7.2c.2 ENSEMBL cdna:known chromosome:CEL140:IV:5651749:5656013:-1 gene:T19E7.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171347 6/11 Cross Hyb Matching Probes None
SNAP00000009626 6/11 Cross Hyb Matching Probes None
SNAP00000009628 5/11 Cross Hyb Matching Probes None
T19E7.2b 6/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177343 3 2 NM_171345 188421_at (11)
NM_171346 188421_at (11)
NM_171347 174799_at (11), 194169_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:5652400-5655596(-) 94.57 100.0
Public Domain and Genome References
Ensembl T19E7.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM75366 Skinhead protein 1, isoform c [Caenorhabditis elegans] ref|NP_741405.1| SKiNhead family member (skn-1) [Caenorhabditis elegans] 0.0
blast AAA83594 Skinhead protein 1, isoform a [Caenorhabditis elegans] ref|NP_741404.1| SKiNhead family member (skn-1) [Caenorhabditis elegans] sp|P34707|SKN1_CAEEL Skinhead-1 protein 0.0
Sequence
Target Sequence 
>C. ELEGANS:188421_AT
gaagatcttgctcagcttttcgaggatgtttcaagagaagaaggacaattgaatcaactt
tttgataataagcaacaacatccagttatcaataatgtttctctgtcggaaggaattgtt
tataatcaggcaaatttgaccgagatgcaagagatgcgtgattcctgcaatcaagtttcc
atttcaacaattccaacaacatcgactgctcaaccagagactttgttcaatgtaaccgat
tcacagactgtcgaacagtggcttccaacagaagttgtaccaaacgatgtgttcccaaca
tccaactacgcctacattggaatgcaaaacgacagtcttcaagcagttgtatcaaatgga
cagattgactatgatcattcctatcaatccactggtcagactccactgtctcctctcatc
attggatcttcaggacgtcaacagcagactcaaacgagcccaggaagcgtcacagtgact
gcaacagctactcaatcgttgttcgatccatatcactcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGATCTTGCTCAGCTTTTCGAGG 686 337 622 Antisense
ATTCCTGCAATCAAGTTTCCATTTC 298 9 782 Antisense
AATTCCAACAACATCGACTGCTCAA 295 177 810 Antisense
GACTGCTCAACCAGAGACTTTGTTC 106 373 825 Antisense
GACTGTCGAACAGTGGCTTCCAACA 604 375 867 Antisense
TATCAATCCACTGGTCAGACTCCAC 139 661 1003 Antisense
TCTCCTCTCATCATTGGATCTTCAG 61 611 1030 Antisense
TGGATCTTCAGGACGTCAACAGCAG 520 545 1044 Antisense
AACGAGCCCAGGAAGCGTCACAGTG 20 141 1074 Antisense
GTGACTGCAACAGCTACTCAATCGT 213 483 1096 Antisense
TCGTTGTTCGATCCATATCACTCAC 586 603 1117 Antisense
Sequence Source Affymetrix Proprietary Database