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[177984_at]

Description M04B2.2 /REP_DB=WormBase Gene ID /WP=CE12386 /TR=Q21503 /GB=CAB01236.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 86      4grp_high_8_8 > 03      6grp_total > 76      4grp_total > 14      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 168
1 2 3 4 range
A 132
(1.5)
P 		63.3
(-3)
M 		83.3
(-1.7)
P 		154
(3)
P 		91
B 121.9
(0.7)
P 		84.4
(-1)
P 		40.9
(-3)
A 		172.9
(3)
P 		132
C 165
(0.9)
P 		84.3
(-3)
P 		107.3
(-1.9)
P 		208.9
(3)
P 		125
avr 139.6
(0.7) 		77.3
(-3) 		77.2
(-3) 		178.6
(3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 197
1 2 3 4 5 6 range
A 83.1
(-3)
A 		113.5
(-2)
P 		163
(-0.4)
P 		209.2
(1.1)
P 		170.6
(-0.1)
P 		265.8
(3)
P 		183
B 107.4
(-3)
P 		151.1
(-1.5)
P 		197.1
(0.1)
P 		128.9
(-2.3)
P 		178.3
(-0.5)
P 		279.8
(3)
P 		172
C 127.3
(-3)
P 		170.6
(-1)
P 		135.2
(-2.6)
P 		176
(-0.7)
P 		168.4
(-1.1)
P 		255
(3)
P 		128
avr 105.9
(-3) 		145.1
(-1.5) 		165.1
(-0.8) 		171.4
(-0.6) 		172.4
(-0.5) 		266.9
(3) 		161
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 48.1
(3)
P 		13.7
(-3)
M 		21.8
(-1.6)
P 		22.5
(-1.5)
P 		34
B 38.9
(3)
P 		20.8
(-0.7)
P 		9.5
(-3)
A 		36.8
(2.6)
P 		29
C 54.6
(3)
P 		24.3
(-3)
P 		37.4
(-0.4)
P 		35.2
(-0.8)
P 		30
avr 47.2
(3) 		19.6
(-3) 		22.9
(-2.3) 		31.5
(-0.4) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 89
1 2 3 4 5 6 range
A 15.3
(-3)
A 		40.4
(0)
P 		35.5
(-0.5)
P 		53
(1.6)
P 		51.5
(1.4)
P 		64.7
(3)
P 		49
B 37.4
(-2.7)
P 		50.3
(-1.6)
P 		47.9
(-1.8)
P 		34.1
(-3)
P 		72.4
(0.3)
P 		104.3
(3)
P 		70
C 47.2
(-1.5)
P 		52
(-0.9)
P 		34.4
(-3)
P 		35.4
(-2.9)
P 		54.5
(-0.6)
P 		85.3
(3)
P 		51
avr 33.3
(-3) 		47.6
(-1.3) 		39.3
(-2.3) 		40.8
(-2.1) 		59.5
(0.1) 		84.8
(3) 		52
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177984_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9350
Sequence Type Exemplar sequence
Representative Public ID M04B2.2 NCBI
Target Description M04B2.2 /REP_DB=WormBase Gene ID /WP=CE12386 /TR=Q21503 /GB=CAB01236.1 /SUBMIT=HINXTON /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_069773(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069773 NCBI Caenorhabditis elegans M04B2.2 (M04B2.2) mRNA, complete cds. 11/11 None
SNAP00000026180 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11528027:11530541:1 11/11 None
GENEFINDER00000026187 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11528027:11530541:1 11/11 None
M04B2.2 ENSEMBL cdna:known chromosome:CEL140:IV:11528027:11530541:1 gene:M04B2.2 11/11 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:11528032-11530215(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl M04B2.2
Entrez Gene 178075 Entrez gene
SwissProt Q21503 EMBL-EBI
WormBase CE32909 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1600624_AT similar to THUMP domain containing 3 cfa
CANINE_2:CFA.2075.1.A1_AT similar to THUMP domain containing 3 cfa
CANINE_2:CFAAFFX.9205.1.S1_S_AT similar to THUMP domain containing 3 cfa
CANINE:1587115_S_AT similar to THUMP domain containing 3 cfa
CHICKEN:GGA.4336.1.S1_AT similar to Gene trap ROSA 26 antisense, Philippe Soriano gga
HG-U133_PLUS_2:223804_S_AT THUMP domain containing 3 hs
HG-U133B:223804_S_AT THUMP domain containing 3 hs
HU35KSUBB:RC_H04793_AT THUMP domain containing 3 hs
HU35KSUBC:RC_AA479715_AT THUMP domain containing 3 hs
U133_X3P:G12804432_3P_A_AT THUMP domain containing 3 hs
U133_X3P:HS.30488.1.S3_3P_AT THUMP domain containing 3 hs
U133_X3P:HS.30488.1.S1_3P_A_AT THUMP domain containing 3 hs
HG-U133_PLUS_2:225730_S_AT THUMP domain containing 3 hs
HG-U133B:225730_S_AT THUMP domain containing 3 hs
HG-U133_PLUS_2:225741_AT THUMP domain containing 3 hs
HG-U133B:225741_AT THUMP domain containing 3 hs
HG-U95B:58592_AT THUMP domain containing 3 hs
HG-U95C:64211_AT THUMP domain containing 3 hs
HG-U95E:90059_AT THUMP domain containing 3 hs
HG-U133_PLUS_2:232052_AT THUMP domain containing 3 hs
HG-U133B:232052_AT THUMP domain containing 3 hs
U133_X3P:HS2.47679.1.A1_3P_AT THUMP domain containing 3 hs
HG-U133_PLUS_2:1555858_AT THUMP domain containing 3 hs
HG-U133_PLUS_2:1555860_X_AT THUMP domain containing 3 hs
HG-U133_PLUS_2:242377_X_AT THUMP domain containing 3 hs
HG-U133B:242377_X_AT THUMP domain containing 3 hs
HG-U95C:50114_S_AT THUMP domain containing 3 hs
HG-U95B:55183_R_AT THUMP domain containing 3 hs
HU35KSUBC:RC_AA460671_AT THUMP domain containing 3 hs
MOE430A:1454061_AT THUMP domain containing 3 mm
MOUSE430A_2:1454061_AT THUMP domain containing 3 mm
MOUSE430_2:1454061_AT THUMP domain containing 3 mm
MU11KSUBA:U83176_S_AT THUMP domain containing 3 mm
MG-U74AV2:101444_AT THUMP domain containing 3 mm
MG-U74CV2:129301_AT THUMP domain containing 3 mm
MG-U74BV2:164684_R_AT THUMP domain containing 3 mm
MOE430A:1417684_AT THUMP domain containing 3 mm
MOUSE430A_2:1417684_AT THUMP domain containing 3 mm
MOUSE430_2:1417684_AT THUMP domain containing 3 mm
MG-U74CV2:130341_AT THUMP domain containing 3, mRNA (cDNA clone MGC:13936 IMAGE:3987438) mm
MU19KSUBB:TC33647_I_AT THUMP domain containing 3, mRNA (cDNA clone MGC:13936 IMAGE:3987438) mm
RG-U34B:RC_AA998461_AT similar to THUMP domain containing 3 rn
RAE230B:1393317_AT similar to THUMP domain containing 3 rn
RAT230_2:1393317_AT similar to THUMP domain containing 3 rn
Protein Similarities
Method ID Description E-Value
blast CAB01236 Hypothetical protein M04B2.2 [Caenorhabditis elegans] ref|NP_502174.2| M04B2.2 [Caenorhabditis elegans] 0.0
blast CAE62103 Hypothetical protein CBG06137 [Caenorhabditis briggsae] 1.0E-123
blast XP_686225 PREDICTED: similar to THUMP domain containing 3 isoform 1 [Danio rerio] 2.0E-61
Protein Domains
Database ID Description E-Value
Pfam IPR004114 EMBL-EBI THUMP domain 1.2E-20
Pfam IPR000241 EMBL-EBI Putative RNA methylase 2.7E-31
Sequence
Target Sequence 
>C. ELEGANS:177984_AT
tacggacgattcacccaagtttagagtaacatgcaaacgatgtggagagaaagagattca
caaattcagttcaatggatgctgcttcgaagtttggagctgaaattaataatgcttttgg
ttggaaatgtagtgtcaaagagttcgatatagaagtagtattaaggattgatcggaataa
tatgacagtaatgatggctctgaacgaagaatctctattcaaacgtaatatctgtgcgta
tggaccaactacaatgagatctacaatgtgtcattgcatgcttcaattagctgatataaa
accaggagatattattgtcgatgcaatgtgtggaggtggctctattccgattgaaggggc
aatttcatggaaaaattcattatttttgggtggagataatcatgagatggcaatgagcag
atgtctacagaattggtcggcgaattcatcgagctcccgatcaaactgcgactttctcac
ttgggatgctacaaatcttccactacgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACGGACGATTCACCCAAGTTTAGA 271 411 405 Antisense
GGATGCTGCTTCGAAGTTTGGAGCT 6 513 480 Antisense
GGCTCTGAACGAAGAATCTCTATTC 234 539 600 Antisense
AATATCTGTGCGTATGGACCAACTA 567 173 631 Antisense
GTGTCATTGCATGCTTCAATTAGCT 278 487 672 Antisense
GATGCAATGTGTGGAGGTGGCTCTA 192 413 724 Antisense
GTGGCTCTATTCCGATTGAAGGGGC 16 493 740 Antisense
GATGTCTACAGAATTGGTCGGCGAA 551 409 824 Antisense
GAATTCATCGAGCTCCCGATCAAAC 623 321 846 Antisense
CGACTTTCTCACTTGGGATGCTACA 703 251 873 Antisense
GGATGCTACAAATCTTCCACTACGC 645 513 888 Antisense
Sequence Source Affymetrix Proprietary Database