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[190655_at] RNP-1 protein

Description ZK863.7 /REP_DB=WormBase Gene ID /WP=CE15447 /GEN=rnp-1 /TR=Q10667 /GB=CAB01455.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=RNP-1 protein
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 79      4grp_highest_8_8 > 28      4grp_high_8_8 > 31      6grp_highest_nonorm > 85      6grp_total > 79      4grp_total > 32      6grp_highest_sub > Da      6grp_cgc > 59      6grp_high1_sub > Cu      6grp_cgc_sub > Da      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 175
1 2 3 4 range
A 384.2
(-3)
P 		452.7
(0.3)
P 		509.6
(3)
P 		390.4
(-2.7)
P 		125
B 490.1
(3)
P 		335
(-3)
P 		463.5
(2)
P 		467.7
(2.1)
P 		155
C 357
(-2.8)
P 		352.5
(-3)
P 		442.3
(0.4)
P 		510.3
(3)
P 		158
avr 410.4
(-1) 		380.1
(-3) 		471.8
(3) 		456.1
(2) 		92

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 529
1 2 3 4 5 6 range
A 534.9
(-3)
P 		693.4
(-1.1)
P 		635.3
(-1.8)
P 		628.7
(-1.9)
P 		764.5
(-0.3)
P 		1046.6
(3)
P 		512
B 624.2
(-1.8)
P 		723.8
(0.1)
P 		626.5
(-1.7)
P 		558.2
(-3)
P 		742.6
(0.5)
P 		877.4
(3)
P 		319
C 672.7
(-0.5)
P 		683.9
(-0.4)
P 		598.1
(-1.7)
P 		517.4
(-3)
P 		831.2
(2)
P 		896.3
(3)
P 		379
avr 610.6
(-2.3) 		700.4
(-0.9) 		620
(-2.2) 		568.1
(-3) 		779.4
(0.4) 		940.1
(3) 		372
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 99
1 2 3 4 range
A 139.9
(3)
P 		98.3
(-0)
P 		133.2
(2.5)
P 		57.1
(-3)
P 		83
B 156.3
(3)
P 		82.7
(-3)
P 		107.4
(-1)
P 		99.7
(-1.6)
P 		74
C 118.2
(-0.2)
P 		101.4
(-1.6)
P 		154.2
(3)
P 		86
(-3)
P 		68
avr 138.1
(3) 		94.1
(-1.6) 		131.6
(2.3) 		80.9
(-3) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 229
1 2 3 4 5 6 range
A 98.6
(-3)
P 		246.6
(2.7)
P 		138.3
(-1.5)
P 		159.5
(-0.7)
P 		230.7
(2.1)
P 		254.8
(3)
P 		156
B 217.2
(-0.7)
P 		240.9
(0.1)
P 		152.1
(-2.9)
P 		147.9
(-3)
P 		301.7
(2.1)
P 		327.2
(3)
P 		179
C 249.3
(1.4)
P 		208.7
(0.2)
P 		152.2
(-1.5)
P 		104
(-3)
P 		269
(2)
P 		300.1
(3)
P 		196
avr 188.4
(-1) 		232.1
(0.6) 		147.5
(-2.6) 		137.1
(-3) 		267.1
(2) 		294
(3) 		157
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190655_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14116
Sequence Type Exemplar sequence
Representative Public ID ZK863.7 NCBI
Target Description ZK863.7 /REP_DB=WormBase Gene ID /WP=CE15447 /GEN=rnp-1 /TR=Q10667 /GB=CAB01455.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=RNP-1 protein
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_073658(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073658 NCBI Caenorhabditis elegans RNP (RRM RNA binding domain) containing family member (rnp-1) (rnp-1) mRNA, complete cds. 11/11 None
SNAP00000039745 ENSEMBL cdna:SNAP chromosome:CEL140:V:12194857:12196710:1 11/11 None
GENEFINDER00000039749 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12194863:12196660:1 9/11 None
ZK863.7 ENSEMBL cdna:known chromosome:CEL140:V:12194863:12196890:1 gene:ZK863.7 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
chrV:12194862-12196752(+) 100.0 100.0
Public Domain and Genome References
Gene Title RNP-1 protein
Gene Symbol rnp-1
Ensembl ZK863.7
Entrez Gene 179672 Entrez gene
SwissProt Q10667 EMBL-EBI
WormBase CE15447 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB01455 Hypothetical protein ZK863.7 [Caenorhabditis elegans] ref|NP_506059.1| RNP (RRM RNA binding domain) containing family member (rnp-1) [Caenorhabditis elegans] sp|Q10667|RNP1_CAEEL RNA-binding protein rnp-1 gb|AAA92287.1| RNP-1 1.0E-144
blast CAB01455 Hypothetical protein ZK863.7 [Caenorhabditis elegans] ref|NP_506059.1| RNP (RRM RNA binding domain) containing family member (rnp-1) [Caenorhabditis elegans] sp|Q10667|RNP1_CAEEL RNA-binding protein rnp-1 gb|AAA92287.1| RNP-1 1.0E-143
blast CAB01455 Hypothetical protein ZK863.7 [Caenorhabditis elegans] ref|NP_506059.1| RNP (RRM RNA binding domain) containing family member (rnp-1) [Caenorhabditis elegans] sp|Q10667|RNP1_CAEEL RNA-binding protein rnp-1 gb|AAA92287.1| RNP-1 1.0E-111
blast CAE75414 Hypothetical protein CBG23404 [Caenorhabditis briggsae] 1.0E-106
blast CAE75414 Hypothetical protein CBG23404 [Caenorhabditis briggsae] 8.0E-79
blast EAA05271 ENSANGP00000012496 [Anopheles gambiae str. PEST] ref|XP_309538.2| ENSANGP00000012496 [Anopheles gambiae str. PEST] 6.0E-18
blast EAA05271 ENSANGP00000012496 [Anopheles gambiae str. PEST] ref|XP_309538.2| ENSANGP00000012496 [Anopheles gambiae str. PEST] 7.0E-18
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.0E-9
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.0E-9
Sequence
Target Sequence 
>C. ELEGANS:190655_AT
aagaatcgcgtacggtgctcaatcggttgttgagcctgaaattccacaaccaatggaccc
agatcttcaagccttgtaccaggagtatcaattatcgagacaacgttatgtttattatcg
tgatcgtctactcaaagagatggaagctaaacaacatggatcaacagctggatttgcttt
atcatcttcatcaaccgttcctgttcctgttgcatcagctcctcctggagccacacaact
ttctgctgctccggtttcctatcaaccaaatgccccaccagtcattgcttcaatcaatgc
tccatatgcggttgcttctaacttgagagctccatatgcgttacaatcggctccatacgc
atcggctgcatcggcgccctacggatcggtgacacctgctggagccccgagtaatgttat
gacgacgcaacagtatttgcaacaaatacagcatcaacaagctactggctcacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGAATCGCGTACGGTGCTCAATCG 67 153 423 Antisense
TCGGTTGTTGAGCCTGAAATTCCAC 114 607 445 Antisense
CCAGATCTTCAAGCCTTGTACCAGG 482 271 481 Antisense
TTGCTTTATCATCTTCATCAACCGT 335 701 596 Antisense
GCTCCGGTTTCCTATCAACCAAATG 48 297 670 Antisense
TCAATGCTCCATATGCGGTTGCTTC 501 633 716 Antisense
GGTTGCTTCTAACTTGAGAGCTCCA 498 507 732 Antisense
GCTCCATATGCGTTACAATCGGCTC 114 299 751 Antisense
TACGGATCGGTGACACCTGCTGGAG 97 647 802 Antisense
GCTGGAGCCCCGAGTAATGTTATGA 605 293 820 Antisense
AGCATCAACAAGCTACTGGCTCACC 709 77 872 Antisense
Sequence Source Affymetrix Proprietary Database