[Home] | [Total List]

[190792_s_at]

Description W06A7.3B /REP_DB=WormBase Gene ID /WP=CE14668 /TR=Q23188 /GB=CAB01523.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=histone H4 protein like
Cluster 6grp_highest_10_10 > 92      6grp_high1_10_10 > 49      4grp_highest_8_8 > 07      4grp_high_8_8 > 21      6grp_highest_nonorm > 48      6grp_total > 19      4grp_total > 18      6grp_highest_sub > Cu      6grp_cgc > 08      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2119
1 2 3 4 range
A 3512.9
(-3)
P 		3900.1
(-1.9)
P 		3666.1
(-2.6)
P 		5593.6
(3)
P 		2081
B 3789.8
(-2.3)
P 		3827.7
(-2.2)
P 		3564.2
(-3)
P 		5632
(3)
P 		2068
C 3518.4
(-3)
P 		4309.2
(1.1)
P 		3720.3
(-2)
P 		4680.3
(3)
P 		1162
avr 3607
(-3) 		4012.3
(-1.6) 		3650.2
(-2.8) 		5302
(3) 		1695

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2114
1 2 3 4 5 6 range
A 4401.1
(0.7)
P 		3941.2
(-0.7)
P 		3179.4
(-3)
P 		3643.2
(-1.6)
P 		4093.1
(-0.2)
P 		5159.1
(3)
P 		1980
B 3841.9
(-0.1)
P 		3461.1
(-2.4)
P 		3577.8
(-1.7)
P 		4351.7
(3)
P 		3371.1
(-3)
P 		3462.9
(-2.4)
P 		981
C 4983
(3)
P 		3045.2
(-3)
P 		4107.5
(0.3)
P 		3865.6
(-0.5)
P 		4846.7
(2.6)
P 		3629
(-1.2)
P 		1938
avr 4408.7
(3) 		3482.5
(-3) 		3621.6
(-2.1) 		3953.5
(0.1) 		4103.6
(1) 		4083.7
(0.9) 		926
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 507
1 2 3 4 range
A 1279
(3)
P 		846.6
(-2.6)
P 		958.4
(-1.2)
P 		818.8
(-3)
P 		460
B 1208.5
(3)
P 		945.3
(-1.1)
P 		825.9
(-3)
P 		1200.2
(2.9)
P 		383
C 1164.7
(1.4)
P 		1238.9
(2.3)
P 		1296.6
(3)
P 		789.2
(-3)
P 		507
avr 1217.4
(3) 		1010.3
(-1.4) 		1027
(-1.1) 		936.1
(-3) 		281

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1155
1 2 3 4 5 6 range
A 811.3
(-2)
P 		1401.7
(3)
P 		692.4
(-3)
P 		924
(-1)
P 		1235.1
(1.6)
P 		1256.1
(1.8)
P 		709
B 1336.8
(2.6)
P 		1152.1
(0.4)
P 		868.8
(-3)
P 		1152.6
(0.4)
P 		1369.6
(3)
P 		1291.3
(2.1)
P 		501
C 1847
(3)
P 		929.2
(-2.1)
P 		1045.4
(-1.5)
P 		777.4
(-3)
P 		1568.3
(1.4)
P 		1214.8
(-0.5)
P 		1070
avr 1331.7
(2.3) 		1161
(0.4) 		868.9
(-3) 		951.3
(-2.1) 		1391
(3) 		1254.1
(1.4) 		522
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190792_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12537
Sequence Type Exemplar sequence
Representative Public ID W06A7.3B NCBI
Target Description W06A7.3B /REP_DB=WormBase Gene ID /WP=CE14668 /TR=Q23188 /GB=CAB01523.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=histone H4 protein like
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_074257(11), NM_074255(11), NM_074256(11), NM_001029018(11), NM_001029019(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074257 NCBI Caenorhabditis elegans RETiculon protein family member (ret-1) (ret-1) mRNA, complete cds. 11/11 None
NM_074255 NCBI Caenorhabditis elegans RETiculon protein family member (ret-1) (ret-1) mRNA, complete cds. 11/11 None
NM_074256 NCBI Caenorhabditis elegans RETiculon protein family member (ret-1) (ret-1) mRNA, complete cds. 11/11 None
NM_001029018 NCBI Caenorhabditis elegans RETiculon protein family member (ret-1) (ret-1) mRNA, complete cds. 11/11 None
NM_001029019 NCBI Caenorhabditis elegans RETiculon protein family member (ret-1) (ret-1) mRNA, complete cds. 11/11 None
SNAP00000021522 ENSEMBL cdna:SNAP chromosome:CEL140:V:14832185:14833428:-1 11/11 None
W06A7.3b ENSEMBL cdna:known chromosome:CEL140:V:14831766:14833736:-1 gene:W06A7.3 11/11 None
W06A7.3c ENSEMBL cdna:known chromosome:CEL140:V:14831839:14846837:-1 gene:W06A7.3 11/11 A 
W06A7.3e ENSEMBL cdna:known chromosome:CEL140:V:14832185:14833207:-1 gene:W06A7.3 11/11 None
W06A7.3a ENSEMBL cdna:known chromosome:CEL140:V:14832185:14846837:-1 gene:W06A7.3 11/11 None
W06A7.3d ENSEMBL cdna:known chromosome:CEL140:V:14832185:14840961:-1 gene:W06A7.3 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:14832184-14833428(-) 100.0 100.0
Public Domain and Genome References
Ensembl W06A7.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB51467 Hypothetical protein W06A7.3c [Caenorhabditis elegans] ref|NP_506656.1| RETiculon protein family member (ret-1) [Caenorhabditis elegans] 0.0
blast CAB01522 Hypothetical protein W06A7.3a [Caenorhabditis elegans] ref|NP_506657.1| RETiculon protein family member (ret-1) [Caenorhabditis elegans] 0.0
blast CAE48544 Hypothetical protein W06A7.3d [Caenorhabditis elegans] ref|NP_001024189.1| RETiculon protein family member (ret-1) [Caenorhabditis elegans] 0.0
blast CAE66366 Hypothetical protein CBG11624 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003388 EMBL-EBI Reticulon 7.6E-107
Pfam IPR003388 EMBL-EBI Reticulon 3.0E-107
Pfam IPR003388 EMBL-EBI Reticulon 3.0E-107
Pfam IPR003388 EMBL-EBI Reticulon 3.0E-107
Pfam IPR003388 EMBL-EBI Reticulon 3.0E-107
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506658.1 2 40-62,152-174
NP_506656.1 2 2319-2341,2407-2429
NP_506657.1 5 2292-2314,2321-2340,2360-2382,2425-2447,2537-2559
NP_001024189.1 2 405-427,493-515
NP_001024190.1 2 21-43,134-156
W06A7.3b 2 40-62,152-174
W06A7.3c 2 2319-2341,2407-2429
W06A7.3e 2 21-43,134-156
W06A7.3a 5 2292-2314,2321-2340,2360-2382,2425-2447,2537-2559
W06A7.3d 2 405-427,493-515
SNAP00000021522 2 40-62,152-174
Sequence
Target Sequence 
>C. ELEGANS:190792_S_AT
ccaagaagtcagccatcgttctctcattggctcttctcgtcctgttcgttcttgccaagt
acccacttctcacagtcgtcacatattcgcttcttcttgctctcggagctgccgctggat
tccgcgtcttcaagaaggttgaagctcaaatcaagaagaccgattctgagcatccattct
cagagatcctcgcacaagacttgactcttccacaagaaaaggttcacgctcaagctgatg
tgttcgttgagcacgccacctgcattgccaataagctgaagaagctcgtcttcgttgaga
gcccactggaatctatcaaattcggacttgttctctggtctttgacatacatcgcttcgt
ggttctctggattcacccttgccattcttggacttctcggagttttctctgtgccaaagg
tttacgaatctaaccaagaagccatcgacccccatcttgctaccatctccggacatctca
agaacgtccagaacattatcgatgagaaactcccattcctcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCAAGAAGTCAGCCATCGTTCTCTC 326 277 119 Antisense
CACAGTCGTCACATATTCGCTTCTT 597 195 189 Antisense
GAAGACCGATTCTGAGCATCCATTC 666 337 273 Antisense
AGAGATCCTCGCACAAGACTTGACT 614 67 300 Antisense
TGATGTGTTCGTTGAGCACGCCACC 566 565 354 Antisense
GAAGCTCGTCTTCGTTGAGAGCCCA 425 343 399 Antisense
AATTCGGACTTGTTCTCTGGTCTTT 473 177 437 Antisense
TGGTCTTTGACATACATCGCTTCGT 196 553 454 Antisense
TTCTCGGAGTTTTCTCTGTGCCAAA 76 693 512 Antisense
CCATCTCCGGACATCTCAAGAACGT 303 271 581 Antisense
ATCGATGAGAAACTCCCATTCCTCC 261 35 616 Antisense
Sequence Source Affymetrix Proprietary Database