[Home] | [Total List]

[183287_at]

Description Y4C6B.2 /REP_DB=WormBase Gene ID /WP=CE21306 /TR=Q9UAZ9 /GB=AAD14765.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 76      6grp_high1_10_10 > 77      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 98      6grp_total > 67      4grp_total > 02      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7076
1 2 3 4 range
A 362.4
(-3)
P 		540.3
(-2.8)
P 		451
(-2.9)
P 		7410.9
(3)
P 		7049
B 335.1
(-3)
P 		543.5
(-2.8)
P 		615.6
(-2.7)
P 		5704.6
(3)
P 		5370
C 378.4
(-3)
P 		471.3
(-2.9)
P 		530.4
(-2.8)
P 		6393.3
(3)
P 		6015
avr 358.6
(-3) 		518.4
(-2.8) 		532.3
(-2.8) 		6502.9
(3) 		6144

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1989
1 2 3 4 5 6 range
A 401.1
(-2.9)
P 		360.4
(-3)
P 		421.6
(-2.8)
P 		390.6
(-2.9)
P 		544.4
(-2.3)
P 		2037.9
(3)
P 		1678
B 384.6
(-2.7)
P 		467.3
(-2.5)
P 		298.3
(-3)
P 		419.8
(-2.6)
P 		608.1
(-2.1)
P 		2287.3
(3)
P 		1989
C 336.5
(-3)
P 		405.1
(-2.7)
P 		324.6
(-3)
P 		395.2
(-2.8)
P 		480.6
(-2.5)
P 		2237.7
(3)
P 		1913
avr 374.1
(-2.9) 		410.9
(-2.8) 		348.2
(-3) 		401.9
(-2.8) 		544.4
(-2.4) 		2187.6
(3) 		1839
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1109
1 2 3 4 range
A 132
(-2.9)
P 		117.3
(-3)
P 		117.9
(-3)
P 		1084.8
(3)
P 		968
B 106.9
(-3)
P 		134.2
(-2.9)
P 		142.7
(-2.8)
P 		1215.6
(3)
P 		1109
C 125.3
(-3)
P 		135.5
(-2.9)
P 		184.9
(-2.6)
P 		1078
(3)
P 		953
avr 121.4
(-3) 		129
(-3) 		148.5
(-2.8) 		1126.1
(3) 		1005

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 781
1 2 3 4 5 6 range
A 73.9
(-3)
P 		128.2
(-2.2)
P 		91.8
(-2.7)
P 		99.1
(-2.6)
P 		164.3
(-1.7)
P 		496.2
(3)
P 		422
B 133.8
(-2.5)
P 		155.5
(-2.4)
P 		72.4
(-3)
P 		111.2
(-2.7)
P 		247.1
(-1.7)
P 		852.9
(3)
P 		781
C 124.7
(-2.6)
P 		123.6
(-2.6)
P 		82.6
(-3)
P 		79.5
(-3)
P 		155.5
(-2.3)
P 		749.1
(3)
P 		670
avr 110.8
(-2.7) 		135.8
(-2.5) 		82.3
(-3) 		96.6
(-2.9) 		189
(-2) 		699.4
(3) 		617
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183287_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10937
Sequence Type Exemplar sequence
Representative Public ID Y4C6B.2 NCBI
Target Description Y4C6B.2 /REP_DB=WormBase Gene ID /WP=CE21306 /TR=Q9UAZ9 /GB=AAD14765.1 /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_001028307(11), NM_001028308(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028307 NCBI Caenorhabditis elegans Y4C6B.2a (Y4C6B.2) mRNA, complete cds. 11/11 None
NM_001028308 NCBI Caenorhabditis elegans Y4C6B.2b (Y4C6B.2) mRNA, complete cds. 9/11 None
SNAP00000011098 ENSEMBL cdna:SNAP chromosome:CEL140:IV:5340881:5344054:1 11/11 None
GENEFINDER00000011109 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:5340881:5344164:1 10/11 None
Y4C6B.2a ENSEMBL cdna:known chromosome:CEL140:IV:5340879:5344167:1 gene:Y4C6B.2 11/11 None
Y4C6B.2b ENSEMBL cdna:known chromosome:CEL140:IV:5343128:5344054:1 gene:Y4C6B.2 9/11 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:5340886-5344060(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y4C6B.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAD14765 Hypothetical protein Y4C6B.2a [Caenorhabditis elegans] ref|NP_001023478.1| Y4C6B.2a [Caenorhabditis elegans] 0.0
blast CAE72727 Hypothetical protein CBG19965 [Caenorhabditis briggsae] 0.0
blast CAE64816 Hypothetical protein CBG09610 [Caenorhabditis briggsae] 1.0E-99
Protein Domains
Database ID Description E-Value
Pfam IPR002422 EMBL-EBI Amino acid/polyamine transporter II 2.2E-69
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001023478.1 11 13-35,40-62,96-118,131-153,160-182,197-216,237-259,274-296,318-340,344-366,395-417
NP_001023479.1 3 12-34,38-57,87-109
Y4C6B.2a 11 13-35,40-62,96-118,131-153,160-182,197-216,237-259,274-296,318-340,344-366,395-417
Y4C6B.2b 3 12-34,38-57,87-109
SNAP00000011098 11 13-35,40-62,96-118,131-153,160-182,197-216,237-259,274-296,318-340,344-366,395-417
GENEFINDER00000011109 11 13-35,40-62,96-118,131-153,160-182,197-216,237-259,274-296,318-340,344-366,395-417
Sequence
Target Sequence 
>C. ELEGANS:183287_AT
gtcttcatgtttcattggctctcacaatcactttcaatccattgaaccaggaatttgagg
aaattttgaatatgtcacatgattttggatggcaaagaatcgtggctagagctctagtta
tgctttcagtagtttttgtcgcggaatctgttccaaattttggagttttattggatcttg
tcggtggatcaacaattacaatgatggctttagtagttccaattgtatttaatttggcgc
taaccacaattaagaaaaagaaagaaaataaggataatgaggaaaagttaacgattaagg
agatatttcaaaactcggataagatcaaacttctggcaaatatcttaattcttgtatttg
caattttcggaggagtggctgctaccacttcagcaatgcaaacgatgctccagagtgaat
tcagcgctccatgttatgcaagaatttggagtgagaatgcaagaattatggaagaacaac
gacaattgacttttacacacggaaaaatcgcgtgctgtggaatgttccgtaacatttctg
caacgggatccgaagtttgtctggacgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCTTCATGTTTCATTGGCTCTCAC 419 469 866 Antisense
TTGGCTCTCACAATCACTTTCAATC 327 709 880 Antisense
GAGCTCTAGTTATGCTTTCAGTAGT 287 387 974 Antisense
GTAGTTTTTGTCGCGGAATCTGTTC 577 451 994 Antisense
GGAGTTTTATTGGATCTTGTCGGTG 85 517 1027 Antisense
TGGCTGCTACCACTTCAGCAATGCA 80 545 1241 Antisense
GATGCTCCAGAGTGAATTCAGCGCT 90 415 1269 Antisense
GAATTCAGCGCTCCATGTTATGCAA 208 325 1282 Antisense
ACGACAATTGACTTTTACACACGGA 80 91 1344 Antisense
AATCGCGTGCTGTGGAATGTTCCGT 40 169 1371 Antisense
GGGATCCGAAGTTTGTCTGGACGTT 129 497 1410 Antisense
Sequence Source Affymetrix Proprietary Database