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[193996_at] RNA recognition motif. (aka RRM, RBD, or RNP domain) (2 domains)

Description R05H10.2 /REP_DB=WormBase Gene ID /WP=CE18105 /TR=O62325 /GB=CAB05579.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain) (2 domains)
Cluster 6grp_total > 06      4grp_total > 60      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 109
1 2 3 4 range
A 125.6
(3)
A 		81.7
(-0.1)
A 		115.1
(2.3)
A 		39.5
(-3)
A 		86
B 117.9
(-0.3)
A 		148.5
(3)
A 		121.4
(0.1)
A 		92.7
(-3)
A 		56
C 118.2
(0)
A 		119.2
(0.2)
A 		138.7
(3)
A 		97.4
(-3)
A 		41
avr 120.6
(2.4) 		116.5
(1.9) 		125.1
(3) 		76.5
(-3) 		49

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 85.4
(2.9)
A 		86.9
(3)
A 		22.3
(-1.8)
A 		5.9
(-3)
A 		30
(-1.2)
A 		9.8
(-2.7)
A 		81
B 98.8
(3)
A 		73.1
(0.6)
A 		61.4
(-0.5)
A 		66.5
(0)
A 		33.9
(-3)
A 		65.1
(-0.1)
A 		65
C 96.2
(3)
A 		61.9
(0.6)
A 		68.8
(1.1)
A 		32.3
(-1.4)
A 		80.5
(1.9)
A 		8.9
(-3)
A 		87
avr 93.5
(3) 		74
(1.2) 		50.8
(-0.9) 		34.9
(-2.4) 		48.1
(-1.2) 		27.9
(-3) 		66
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 45.7
(3)
A 		17.7
(-1.2)
A 		30.1
(0.7)
A 		5.8
(-3)
A 		40
B 37.6
(3)
A 		36.7
(2.7)
A 		28.1
(-0.2)
A 		19.7
(-3)
A 		18
C 39.1
(1.3)
A 		34.3
(0.4)
A 		48.3
(3)
A 		16.4
(-3)
A 		32
avr 40.8
(3) 		29.6
(0.5) 		35.5
(1.8) 		14
(-3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 34
1 2 3 4 5 6 range
A 15.7
(-0.1)
A 		30.9
(3)
A 		4.9
(-2.3)
A 		1.5
(-3)
A 		9
(-1.5)
A 		2.4
(-2.8)
A 		29
B 34.4
(3)
A 		24.3
(0.1)
A 		14.9
(-2.7)
A 		17.6
(-1.9)
A 		13.8
(-3)
A 		24.3
(0.1)
A 		21
C 35.7
(3)
A 		18.9
(-0.1)
A 		17.5
(-0.3)
A 		6.5
(-2.4)
A 		26
(1.2)
A 		3
(-3)
A 		33
avr 28.6
(3) 		24.7
(1.8) 		12.4
(-1.8) 		8.5
(-3) 		16.3
(-0.7) 		9.9
(-2.6) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193996_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2689
Sequence Type Exemplar sequence
Representative Public ID R05H10.2 NCBI
Target Description R05H10.2 /REP_DB=WormBase Gene ID /WP=CE18105 /TR=O62325 /GB=CAB05579.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain) (2 domains)
Cluster Evidence This cluster is supported by a 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_064676(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064676 NCBI Caenorhabditis elegans R05H10.2 (R05H10.2) mRNA, complete cds. 11/11 None
SNAP00000021681 ENSEMBL cdna:SNAP chromosome:CEL140:II:14857151:14868918:1 11/11 None
GENEFINDER00000021684 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14855426:14868918:1 11/11 None
R05H10.2 ENSEMBL cdna:known chromosome:CEL140:II:14857149:14866478:1 gene:R05H10.2 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
chrII:14857147-14858431(+) 85.83 100.0
Public Domain and Genome References
Gene Title RNA recognition motif. (aka RRM, RBD, or RNP domain) (2 domains)
Ensembl R05H10.2
Entrez Gene 175145 Entrez gene
SwissProt O62325 EMBL-EBI
WormBase CE31214 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16190_AT RNA recognition motif (RRM)-containing protein at
ATH1-121501:263766_AT RNA recognition motif (RRM)-containing protein at
CANINE:1583361_AT similar to RNA-binding protein 28 (RNA binding motif protein 28) cfa
CANINE_2:CFA.3335.1.A1_AT similar to RNA-binding protein 28 (RNA binding motif protein 28) cfa
CANINE_2:CFAAFFX.3410.1.S1_AT similar to RNA-binding protein 28 (RNA binding motif protein 28) cfa
DROSOPHILA_2:1624513_AT dm
DROSGENOME1:153294_AT dm
HG-U133_PLUS_2:218593_AT RNA binding motif protein 28 hs
HG-U133A:218593_AT RNA binding motif protein 28 hs
HG-U133A_2:218593_AT RNA binding motif protein 28 hs
HU35KSUBB:RC_AA191335_AT RNA binding motif protein 28 hs
U133_X3P:G8922387_3P_AT RNA binding motif protein 28 hs
HG-U95B:51989_AT RNA binding motif protein 28 hs
MG-U74BV2:105663_AT RNA binding motif protein 28 mm
MG-U74BV2:163766_AT RNA binding motif protein 28 mm
MG-U74CV2:165430_R_AT RNA binding motif protein 28 mm
MOE430A:1452091_A_AT RNA binding motif protein 28 mm
MOUSE430A_2:1452091_A_AT RNA binding motif protein 28 mm
MOUSE430_2:1452091_A_AT RNA binding motif protein 28 mm
MOE430A:1426513_AT RNA binding motif protein 28 mm
MOUSE430A_2:1426513_AT RNA binding motif protein 28 mm
MOUSE430_2:1426513_AT RNA binding motif protein 28 mm
MG-U74BV2:110584_AT RNA binding motif protein 28 (Rbm28), transcript variant 1, mRNA mm
MG-U74CV2:166041_R_AT RNA binding motif protein 28 (Rbm28), transcript variant 1, mRNA mm
MU19KSUBB:TC25888_AT RNA binding motif protein 28 (Rbm28), transcript variant 1, mRNA mm
RAE230B:1395520_AT RNA binding motif protein 28 (predicted) rn
RAT230_2:1395520_AT RNA binding motif protein 28 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
9058 biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8483 transaminase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05579 Hypothetical protein R05H10.2 [Caenorhabditis elegans] ref|NP_497077.2| R05H10.2 [Caenorhabditis elegans] 0.0
blast CAE73435 Hypothetical protein CBG20878 [Caenorhabditis briggsae] 1.0E-175
blast CAE73435 Hypothetical protein CBG20878 [Caenorhabditis briggsae] 1.0E-165
blast CAE73435 Hypothetical protein CBG20878 [Caenorhabditis briggsae] 1.0E-126
blast CAE17866 Hypothetical protein R05H10.7 [Caenorhabditis elegans] ref|NP_001022271.1| R05H10.7 [Caenorhabditis elegans] 8.0E-90
blast CAB05581 Hypothetical protein R05H10.5 [Caenorhabditis elegans] ref|NP_497078.1| R05H10.5 [Caenorhabditis elegans] sp|O62327|GPX2_CAEEL Probable glutathione peroxidase R05H10.5 2.0E-89
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 6.0E-10
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.7E-13
Pfam IPR000889 EMBL-EBI Glutathione peroxidase 5.2E-52
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 6.0E-10
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.7E-13
Pfam IPR000889 EMBL-EBI Glutathione peroxidase 5.2E-52
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000021684 2 162-184,196-218
Sequence
Target Sequence 
>C. ELEGANS:193996_AT
agcttccgaagcttccgaagacgacgaggatgacgaagaaccagctaagaaaccaaaaaa
tccaaaagcccagctcaaaaccgacgaatctatcacagaggggaaggtggtgttcctgag
aaatctgtcctacgacaccaaggaagagctcatcaaggaagagctctccaagttcggaaa
aatcgatctcgccatcatttgcaagtacaaggacagtggccactccaagggaaccgcatt
cgtccatttttccacaccaattgaggcttccaactgtattgagggtgtcgaagacggtgt
tattattgataataggcttgtgaaggcgaatctggcgattccgaggaaagaggcggctga
tatggagaaggagaagctcaccaaggtgccaaaagacaagagaaatttgagattggccag
atttggactgattcgtgatggaactgcggcggcggccgggatgagtaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTTCCGAAGCTTCCGAAGACGAC 240 77 696 Antisense
CAAAAGCCCAGCTCAAAACCGACGA 701 187 758 Antisense
GAAATCTGTCCTACGACACCAAGGA 244 363 815 Antisense
AAGGAAGAGCTCTCCAAGTTCGGAA 509 161 850 Antisense
GTACAAGGACAGTGGCCACTCCAAG 173 461 900 Antisense
TTTTCCACACCAATTGAGGCTTCCA 119 675 943 Antisense
GAGGCTTCCAACTGTATTGAGGGTG 438 401 958 Antisense
GAAGGCGAATCTGGCGATTCCGAGG 351 333 1017 Antisense
GAAGGAGAAGCTCACCAAGGTGCCA 185 333 1062 Antisense
TGATTCGTGATGGAACTGCGGCGGC 506 563 1124 Antisense
TGCGGCGGCGGCCGGGATGAGTAAG 352 565 1140 Antisense
Sequence Source Affymetrix Proprietary Database