[Home] | [Total List]

[175331_at]

Description AV182698_rc /REP_DB=TREMBL Accession /GB=AV182698 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk641d2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 82      6grp_high1_10_10 > 38      4grp_highest_8_8 > 0      4grp_high_8_8 > 44      6grp_highest_nonorm > 0      6grp_total > 38      4grp_total > 51      6grp_highest_sub > Cu      6grp_cgc > 05      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1571
1 2 3 4 range
A 2139.5
(1)
P 		2670.6
(3)
P 		2173
(1.1)
P 		1099.9
(-3)
P 		1571
B 2003.5
(-2.1)
P 		2503.9
(3)
P 		1920.7
(-3)
P 		2289.8
(0.8)
P 		583
C 2301
(-1.1)
P 		2643.9
(3)
P 		2410.9
(0.2)
P 		2143.5
(-3)
P 		500
avr 2148
(-0.6) 		2606.1
(3) 		2168.2
(-0.4) 		1844.4
(-3) 		762

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1854
1 2 3 4 5 6 range
A 1632
(0.8)
P 		1972.2
(3)
P 		1075.1
(-2.8)
P 		1047.4
(-3)
P 		1127.5
(-2.5)
P 		1972.8
(3)
P 		925
B 2499.3
(3)
P 		1149.6
(-1.4)
P 		644.9
(-3)
P 		1088.9
(-1.6)
P 		1267.3
(-1)
P 		1625.7
(0.2)
P 		1854
C 2179.8
(3)
P 		1604.1
(0.6)
P 		1452.9
(0)
P 		721.6
(-3)
P 		1270.2
(-0.7)
P 		1320
(-0.5)
P 		1458
avr 2103.7
(3) 		1575.3
(0.2) 		1057.6
(-2.5) 		952.6
(-3) 		1221.7
(-1.6) 		1639.5
(0.6) 		1151
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 679
1 2 3 4 range
A 779
(3)
P 		579.7
(1.1)
P 		568.1
(1)
P 		161
(-3)
P 		618
B 638.9
(3)
P 		618.4
(2.4)
P 		445.1
(-3)
P 		488
(-1.7)
P 		194
C 761.7
(2)
P 		760.1
(2)
P 		840.3
(3)
P 		361.4
(-3)
P 		479
avr 726.5
(3) 		652.7
(1.9) 		617.8
(1.3) 		336.8
(-3) 		390

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 725
1 2 3 4 5 6 range
A 300.8
(-2.1)
P 		701.4
(3)
P 		234.1
(-3)
P 		265.7
(-2.6)
P 		340.2
(-1.6)
P 		480.3
(0.2)
P 		467
B 869.6
(3)
P 		382.6
(-1.1)
P 		156.6
(-3)
P 		288.4
(-1.9)
P 		514.9
(0)
P 		606.2
(0.8)
P 		713
C 807.9
(3)
P 		489.5
(0.1)
P 		369.8
(-1)
P 		145.1
(-3)
P 		411
(-0.6)
P 		441.9
(-0.3)
P 		663
avr 659.4
(3) 		524.5
(1.1) 		253.5
(-2.7) 		233.1
(-3) 		422
(-0.3) 		509.5
(0.9) 		426
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175331_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20383
Sequence Type Exemplar sequence
Representative Public ID AV182698 NCBI
Target Description AV182698_rc /REP_DB=TREMBL Accession /GB=AV182698 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk641d2 : 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_060648(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060648 NCBI Caenorhabditis elegans human HnRNP A1 homolog family member (hrp-2) (hrp-2) mRNA, complete cds. 11/11 None
F58D5.1.1 ENSEMBL cdna:known chromosome:CEL140:I:12068400:12073019:-1 gene:F58D5.1 11/11 A 
F58D5.1.2 ENSEMBL cdna:known chromosome:CEL140:I:12068401:12073026:-1 gene:F58D5.1 11/11 A 
F58D5.1.3 ENSEMBL cdna:known chromosome:CEL140:I:12068428:12073019:-1 gene:F58D5.1 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
chrI:12068351-12068676(-) 83.08 100.0
Public Domain and Genome References
Gene Title
Gene Symbol hrp-2
Ensembl F58D5.1
Entrez Gene 173086 Entrez gene
SwissProt Q9NLD1 EMBL-EBI
WormBase CE36388 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:18658_AT RNA recognition motif (RRM)-containing protein at
ATH1-121501:255598_AT RNA recognition motif (RRM)-containing protein at
CANINE:1602731_AT similar to heterogeneous nuclear ribonucleoprotein R cfa
CANINE:1595484_AT similar to heterogeneous nuclear ribonucleoprotein R cfa
CANINE:1586232_AT similar to heterogeneous nuclear ribonucleoprotein R cfa
CANINE_2:CFA.11232.1.A1_AT similar to heterogeneous nuclear ribonucleoprotein R cfa
CANINE_2:CFA.19996.1.S1_S_AT similar to heterogeneous nuclear ribonucleoprotein R cfa
CANINE_2:CFAAFFX.20603.1.S1_S_AT similar to heterogeneous nuclear ribonucleoprotein R cfa
DROSOPHILA_2:1640760_AT dm
DROSOPHILA_2:1634792_S_AT dm
DROSGENOME1:153074_AT dm
CHICKEN:GGAAFFX.12980.1.S1_AT heterogeneous nuclear ribonucleoprotein R gga
HG-U133_PLUS_2:232004_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U133B:232004_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U133_PLUS_2:208765_S_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U133A_2:208765_S_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U133A:208765_S_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U133A:208766_S_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U133_PLUS_2:208766_S_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U133A_2:208766_S_AT heterogeneous nuclear ribonucleoprotein R hs
HG-FOCUS:208766_S_AT heterogeneous nuclear ribonucleoprotein R hs
HU35KSUBA:C16574_AT heterogeneous nuclear ribonucleoprotein R hs
HU35KSUBA:RC_AA279162_S_AT heterogeneous nuclear ribonucleoprotein R hs
HU35KSUBB:RC_T41116_AT heterogeneous nuclear ribonucleoprotein R hs
U133_X3P:G12655184_3P_A_AT heterogeneous nuclear ribonucleoprotein R hs
U133_X3P:HS.8412.0.S1_3P_AT heterogeneous nuclear ribonucleoprotein R hs
U133_X3P:HS.15265.0.S1_3P_A_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U95AV2:39792_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U95B:48254_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U95E:80274_AT heterogeneous nuclear ribonucleoprotein R hs
HG-U95C:49493_AT Heterogeneous nuclear ribonucleoprotein R hs
HG-U95B:57319_AT Heterogeneous nuclear ribonucleoprotein R hs
HG-U95D:89077_AT Heterogeneous nuclear ribonucleoprotein R hs
HU35KSUBD:RC_AA411931_AT Heterogeneous nuclear ribonucleoprotein R hs
MOUSE430_2:1427129_A_AT heterogeneous nuclear ribonucleoprotein R mm
MOE430A:1427129_A_AT heterogeneous nuclear ribonucleoprotein R mm
MOUSE430A_2:1427129_A_AT heterogeneous nuclear ribonucleoprotein R mm
MG-U74AV2:97491_AT heterogeneous nuclear ribonucleoprotein R mm
MG-U74BV2:163881_AT heterogeneous nuclear ribonucleoprotein R mm
MOE430A:1437526_X_AT heterogeneous nuclear ribonucleoprotein R mm
MOUSE430A_2:1437526_X_AT heterogeneous nuclear ribonucleoprotein R mm
MOUSE430_2:1437526_X_AT heterogeneous nuclear ribonucleoprotein R mm
MOE430A:1452030_A_AT heterogeneous nuclear ribonucleoprotein R mm
MOUSE430A_2:1452030_A_AT heterogeneous nuclear ribonucleoprotein R mm
MOUSE430_2:1452030_A_AT heterogeneous nuclear ribonucleoprotein R mm
MOE430B:1438807_AT Heterogeneous nuclear ribonucleoprotein R, mRNA (cDNA clone MGC:46961 IMAGE:3500728) mm
MOUSE430_2:1438807_AT Heterogeneous nuclear ribonucleoprotein R, mRNA (cDNA clone MGC:46961 IMAGE:3500728) mm
MG-U74CV2:134853_AT Heterogeneous nuclear ribonucleoprotein R, mRNA (cDNA clone MGC:46961 IMAGE:3500728) mm
MU19KSUBC:TC37016_AT Heterogeneous nuclear ribonucleoprotein R, mRNA (cDNA clone MGC:46961 IMAGE:3500728) mm
MU19KSUBC:TC37016_G_AT Heterogeneous nuclear ribonucleoprotein R, mRNA (cDNA clone MGC:46961 IMAGE:3500728) mm
RG-U34C:RC_AI178441_AT heterogeneous nuclear ribonucleoprotein R rn
RAE230A:1373905_AT heterogeneous nuclear ribonucleoprotein R rn
RAT230_2:1373905_AT heterogeneous nuclear ribonucleoprotein R rn
Protein Similarities
Method ID Description E-Value
blast CAB70238 Hypothetical protein F58D5.1 [Caenorhabditis elegans] ref|NP_493049.2| human HnRNP A1 homolog family member (hrp-2) [Caenorhabditis elegans] 0.0
blast CAE69606 Hypothetical protein CBG15837 [Caenorhabditis briggsae] 0.0
blast XP_392307 PREDICTED: similar to CG17838-PE, isoform E [Apis mellifera] 1.0E-116
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.2E-18
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 9.8E-7
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 7.9E-13
Sequence
Target Sequence 
>C. ELEGANS:175331_AT
tacatattaccctcatttctttttcgaattttttaaaaaatttttccactccctctctct
cctcaacccaacccgttaatctctcacgacctcaaaaagtgacaaaaaccattctgaaaa
gttgtattttctcattaattgtaatagagattttgatattgagctttgcaaaaaatggtt
tttaacgtatctctctctctctctgtttctctattcccttcaccctctccctctctctcc
atttgaaaccgttttatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACATATTACCCTCATTTCTTTTTC 664 643 13 Antisense
CATATTACCCTCATTTCTTTTTCGA 431 213 15 Antisense
TATTACCCTCATTTCTTTTTCGAAT 507 663 17 Antisense
GTTAATCTCTCACGACCTCAAAAAG 65 447 87 Antisense
TCTCTCACGACCTCAAAAAGTGACA 76 607 92 Antisense
AAGTGACAAAAACCATTCTGAAAAG 324 155 109 Antisense
AGTTGTATTTTCTCATTAATTGTAA 384 63 132 Antisense
AGAGATTTTGATATTGAGCTTTGCA 230 69 158 Antisense
ATGGTTTTTAACGTATCTCTCTCTC 424 51 187 Antisense
TCTCTCTCCATTTGAAACCGTTTTA 2 613 244 Antisense
TCTCTCCATTTGAAACCGTTTTATT 47 613 246 Antisense
Sequence Source Affymetrix Proprietary Database