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[175226_at] SD22 like protein

Description AU116236_rc /REP_DB=TREMBL Accession /GB=AU116236 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk742c5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 97      6grp_high1_10_10 > 78      4grp_highest_8_8 > 60      4grp_high_8_8 > 26      6grp_highest_nonorm > 91      6grp_total > 78      4grp_total > 38      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 225
1 2 3 4 range
A 257.1
(3)
P 		182.9
(0.3)
P 		90.2
(-3)
P 		186
(0.4)
P 		167
B 218.3
(3)
P 		183.3
(-0.1)
P 		150.8
(-3)
P 		170
(-1.3)
P 		68
C 315.2
(3)
P 		196.6
(-2.7)
P 		191.2
(-3)
P 		232.5
(-1)
P 		124
avr 263.5
(3) 		187.6
(-0.8) 		144.1
(-3) 		196.2
(-0.4) 		119

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 209
1 2 3 4 5 6 range
A 215.7
(-1.3)
P 		244.2
(-0.4)
P 		155.4
(-3)
P 		198.7
(-1.7)
P 		247.7
(-0.3)
P 		363.1
(3)
P 		208
B 233.7
(-1)
P 		170.4
(-3)
P 		209
(-1.8)
P 		231
(-1.1)
P 		296.1
(0.9)
P 		364.6
(3)
P 		194
C 238
(-0)
P 		255.8
(0.9)
P 		181.1
(-3)
P 		248.9
(0.6)
P 		259.7
(1.1)
P 		295.3
(3)
P 		114
avr 229.1
(-1.2) 		223.5
(-1.4) 		181.8
(-3) 		226.2
(-1.3) 		267.8
(0.2) 		341
(3) 		159
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 93.6
(3)
P 		39.7
(-1.6)
P 		23.6
(-3)
P 		27.2
(-2.7)
P 		70
B 69.6
(3)
P 		45.3
(-1.2)
P 		34.9
(-3)
P 		36.2
(-2.8)
P 		35
C 104.3
(3)
P 		56.5
(-1.4)
P 		66.6
(-0.5)
P 		39.2
(-3)
P 		65
avr 89.2
(3) 		47.2
(-1.6) 		41.7
(-2.2) 		34.2
(-3) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 102
1 2 3 4 5 6 range
A 39.8
(-2.3)
P 		86.8
(2.8)
P 		33.8
(-3)
P 		50.4
(-1.2)
P 		74.7
(1.5)
P 		88.4
(3)
P 		55
B 81.3
(-0.8)
P 		56.7
(-2.6)
P 		50.8
(-3)
P 		61.2
(-2.3)
P 		120.3
(1.9)
P 		135.9
(3)
P 		85
C 88.2
(1.8)
P 		78.1
(0.6)
P 		46.1
(-3)
P 		50
(-2.6)
P 		84
(1.3)
P 		98.8
(3)
P 		53
avr 69.8
(-0.5) 		73.9
(-0.2) 		43.6
(-3) 		53.9
(-2) 		93
(1.6) 		107.7
(3) 		64
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175226_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21310
Sequence Type Exemplar sequence
Representative Public ID AU116236 NCBI
Target Description AU116236_rc /REP_DB=TREMBL Accession /GB=AU116236 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk742c5 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_069615(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069615 NCBI Caenorhabditis elegans F13E9.1 (F13E9.1) mRNA, complete cds. 11/11 None
F13E9.1 ENSEMBL cdna:known chromosome:CEL140:IV:10864302:10873579:1 gene:F13E9.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000017059 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:10873257-10873536(+) 100.0 100.0
Public Domain and Genome References
Gene Title SD22 like protein
Ensembl F13E9.1
Entrez Gene 177981 Entrez gene
SwissProt Q19407 EMBL-EBI
WormBase CE33773 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1604217_AT similar to nischarin cfa
CANINE_2:CFA.4335.1.S1_AT similar to nischarin cfa
CANINE_2:CFAAFFX.14812.1.S1_S_AT similar to nischarin cfa
CANINE_2:CFAAFFX.14821.1.S1_AT similar to nischarin cfa
CANINE_2:CFAAFFX.14821.1.S1_S_AT similar to nischarin cfa
DROSOPHILA_2:1628627_AT dm
DROSGENOME1:141574_AT dm
CHICKEN:GGA.15836.1.S1_S_AT similar to KIAA0975 protein gga
CHICKEN:GGA.3001.1.S1_AT similar to KIAA0975 protein gga
CHICKEN:GGAAFFX.24344.1.S1_S_AT similar to KIAA0975 protein gga
HG-U133A:201591_S_AT nischarin hs
HG-U133_PLUS_2:201591_S_AT nischarin hs
HG-FOCUS:201591_S_AT nischarin hs
HG-U133A_2:201591_S_AT nischarin hs
HG-U133_PLUS_2:227392_AT nischarin hs
HG-U133B:227392_AT nischarin hs
HU35KSUBA:RC_AA425921_AT nischarin hs
HU35KSUBA:RC_AA426454_S_AT nischarin hs
HU35KSUBD:RC_R61742_S_AT nischarin hs
U133_X3P:G6005787_3P_S_AT nischarin hs
U133_X3P:HS.285418.0.S1_3P_AT nischarin hs
HG-U95AV2:33916_AT nischarin hs
HG-U95B:44768_AT nischarin hs
HG-U95D:72930_AT nischarin hs
RG-U34C:RC_AI171232_AT nischarin (predicted) rn
RAE230A:1371558_AT nischarin (predicted) rn
RAT230_2:1371558_AT nischarin (predicted) rn
RAE230B:1394957_AT nischarin (predicted) rn
RAT230_2:1394957_AT nischarin (predicted) rn
RAE230B:1384342_AT nischarin (predicted) rn
RAT230_2:1384342_AT nischarin (predicted) rn
RAE230A:1374566_AT Nischarin (predicted) rn
RAT230_2:1374566_AT Nischarin (predicted) rn
RAE230B:1382686_AT Nischarin (predicted) rn
RAT230_2:1382686_AT Nischarin (predicted) rn
RG-U34B:RC_AA943911_AT Nischarin (predicted) rn
RG-U34C:RC_AI101946_AT Nischarin (predicted) rn
RG-U34C:RC_AI237243_AT Nischarin (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7242 intracellular signaling cascade inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA93405 Hypothetical protein F13E9.1 [Caenorhabditis elegans] emb|CAD89747.1| Hypothetical protein F13E9.1 [Caenorhabditis elegans] ref|NP_502016.2| F13E9.1 [Caenorhabditis elegans] 0.0
blast CAE70832 Hypothetical protein CBG17612 [Caenorhabditis briggsae] 1.0E-104
blast AAH91939 Si:ch211-103f16.1 protein [Danio rerio] 9.0E-74
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.19
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.024
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.01
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.19
Pfam IPR001683 EMBL-EBI Phox-like 1.7E-13
Sequence
Target Sequence 
>C. ELEGANS:175226_AT
ctcattctctaacgcataattttcaaattataatttataatgcatggttcttgtaaaata
atctagtctttcttccctgtgaacttccccaacttactattcatctacgtacttccccga
gcttttattcttcattcaaatgatcgtacatatcgtcacgattctcatgaaatcagtgta
cttataccacttttcaaagaatgtatttaatcatttgtcttcttcttggtgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCATTCTCTAACGCATAATTTTCA 11 231 13 Antisense
AATGCATGGTTCTTGTAAAATAATC 15 153 51 Antisense
AAATAATCTAGTCTTTCTTCCCTGT 387 89 68 Antisense
TGAACTTCCCCAACTTACTATTCAT 457 573 92 Antisense
TCCCCAACTTACTATTCATCTACGT 20 597 98 Antisense
CCCGAGCTTTTATTCTTCATTCAAA 150 261 128 Antisense
TTCAAATGATCGTACATATCGTCAC 126 685 147 Antisense
ATATCGTCACGATTCTCATGAAATC 310 21 162 Antisense
ATTCTCATGAAATCAGTGTACTTAT 683 9 173 Antisense
GTGTACTTATACCACTTTTCAAAGA 316 485 188 Antisense
TAATCATTTGTCTTCTTCTTGGTGC 56 635 220 Antisense
Sequence Source Affymetrix Proprietary Database