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[191424_s_at] membrane transport protein

Description F43E2.4 /REP_DB=WormBase Gene ID /WP=CE07240 /TR=O02086 /GB=AAC71121.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=membrane transport protein
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 58      4grp_highest_8_8 > 45      4grp_high_8_8 > 08      6grp_highest_nonorm > 83      6grp_total > 59      4grp_total > 15      6grp_highest_sub > Cu      6grp_cgc > 29      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 199
1 2 3 4 range
A 341.9
(2.2)
P 		282.8
(-0.6)
P 		232.1
(-3)
P 		358.8
(3)
P 		127
B 333.6
(0.9)
P 		253.7
(-3)
P 		318.7
(0.2)
P 		377
(3)
P 		123
C 431
(3)
P 		252.2
(-3)
P 		302.2
(-1.3)
P 		301.5
(-1.3)
P 		179
avr 368.8
(3) 		262.9
(-3) 		284.3
(-1.8) 		345.8
(1.7) 		106

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 470
1 2 3 4 5 6 range
A 426.1
(-1.1)
P 		522.2
(0.4)
P 		294
(-3)
P 		442.3
(-0.8)
P 		430.3
(-1)
P 		702.3
(3)
P 		408
B 367.2
(-1.7)
P 		384.8
(-1.2)
P 		357.1
(-2)
P 		380.6
(-1.3)
P 		323.1
(-3)
P 		531.8
(3)
P 		209
C 764.4
(3)
P 		356.6
(-3)
P 		375.3
(-2.7)
P 		448.1
(-1.7)
P 		604.7
(0.7)
P 		613.8
(0.8)
P 		408
avr 519.2
(0.9) 		421.2
(-1.3) 		342.1
(-3) 		423.7
(-1.2) 		452.7
(-0.6) 		616
(3) 		274
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 124.5
(3)
P 		61.4
(-2.3)
P 		60.7
(-2.3)
P 		52.5
(-3)
P 		72
B 106.4
(3)
P 		62.7
(-3)
P 		73.9
(-1.5)
P 		80.3
(-0.6)
P 		44
C 142.7
(3)
P 		72.5
(-1.6)
P 		105.3
(0.6)
P 		50.8
(-3)
P 		92
avr 124.5
(3) 		65.5
(-2.6) 		80
(-1.2) 		61.2
(-3) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 219
1 2 3 4 5 6 range
A 78.5
(-2.3)
P 		185.7
(3)
P 		64
(-3)
P 		112.2
(-0.6)
P 		129.8
(0.2)
P 		171
(2.3)
P 		122
B 127.8
(-0.8)
P 		128.1
(-0.8)
P 		86.7
(-3)
P 		100.8
(-2.2)
P 		131.3
(-0.6)
P 		198.3
(3)
P 		112
C 283.3
(3)
P 		108.8
(-2.4)
P 		95.5
(-2.8)
P 		90.1
(-3)
P 		195.7
(0.3)
P 		205.5
(0.6)
P 		193
avr 163.2
(1.4) 		140.9
(0.2) 		82.1
(-3) 		101
(-2) 		152.3
(0.8) 		191.6
(3) 		110
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191424_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4342
Sequence Type Exemplar sequence
Representative Public ID F43E2.4 NCBI
Target Description F43E2.4 /REP_DB=WormBase Gene ID /WP=CE07240 /TR=O02086 /GB=AAC71121.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=membrane transport 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_063136(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063136 NCBI Caenorhabditis elegans HAlF transporter (PGP related) family member (haf-2) (haf-2) mRNA, complete cds. 11/11 None
SNAP00000044488 ENSEMBL cdna:SNAP chromosome:CEL140:II:7353740:7356355:-1 11/11 None
GENEFINDER00000044507 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7353740:7356355:-1 11/11 None
F43E2.4 ENSEMBL cdna:known chromosome:CEL140:II:7353522:7356355:-1 gene:F43E2.4 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:7353736-7356316(-) 100.0 100.0
Public Domain and Genome References
Gene Title membrane transport protein
Gene Symbol haf-2
Ensembl F43E2.4
Entrez Gene 174204 Entrez gene
SwissProt O02086 EMBL-EBI
WormBase CE07240 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
166 nucleotide binding inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC71121 Half transporter (pgp related) protein 2 [Caenorhabditis elegans] ref|NP_495537.1| HAlF transporter (PGP related) family member (haf-2) [Caenorhabditis elegans] 0.0
blast CAE67600 Hypothetical protein CBG13145 [Caenorhabditis briggsae] 0.0
blast AAC68724 Half transporter (pgp related) protein 4 [Caenorhabditis elegans] ref|NP_001021666.1| HAlF transporter (PGP related) family member (haf-4) [Caenorhabditis elegans] 1.0E-179
Protein Domains
Database ID Description E-Value
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 8.4E-46
Pfam IPR003439 EMBL-EBI ABC transporter 4.4E-61
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 8.4E-46
Pfam IPR003439 EMBL-EBI ABC transporter 4.4E-61
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495537.1 7 12-34,49-66,73-95,108-130,195-217,232-254,325-347
F43E2.4 7 12-34,49-66,73-95,108-130,195-217,232-254,325-347
SNAP00000044488 7 7-29,56-78,85-107,120-142,207-229,244-266,337-359
GENEFINDER00000044507 7 7-29,56-78,85-107,120-142,207-229,244-266,337-359
Sequence
Target Sequence 
>C. ELEGANS:191424_S_AT
agtcatcaattgtatcgcttatcgagcacttttatgaaccggacgaaggatctgttactc
ttgatggcgttccgatcaaggatattaatcatgtctactaccatcaaaaggttgcattag
tagcacaggaaccagttctctacaatggatctgtacgacataacatcctttatggatgtg
attttgctactgaagatgacatgctcaatgcttccaagatggcgaatgtgcatgattttg
tgatggaattggagaaaggatatgacactaattgtggagagaaaggagttcagatgagtg
gaggacagaaacaaagaattgcgattgcacgagcattggttcgtaatccagctgtattga
ttcttgacgaagcaaccagtgcactagatacagaatccgaggctttagttcaacaagcct
tgagtaggtgtgctcaagaacgaactgttatcatagttgctcatcgtttgtctactatcg
agaaggctaataaaattgctgtcatagtcaaaggatgcctcgttcagatgggaacacaca
ccgaacttatgacagacacagacggaatgtattactcattggtgtctcgtcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGTCATCAATTGTATCGCTTATCGA 710 61 1676 Antisense
CGAGCACTTTTATGAACCGGACGAA 570 249 1698 Antisense
GATCTGTTACTCTTGATGGCGTTCC 240 419 1724 Antisense
GTAGCACAGGAACCAGTTCTCTACA 535 455 1795 Antisense
ATGACATGCTCAATGCTTCCAAGAT 298 45 1871 Antisense
GAGCATTGGTTCGTAATCCAGCTGT 417 389 2006 Antisense
GAATCCGAGGCTTTAGTTCAACAAG 202 329 2068 Antisense
GTTGCTCATCGTTTGTCTACTATCG 507 439 2131 Antisense
AAAGGATGCCTCGTTCAGATGGGAA 285 121 2185 Antisense
GGGAACACACACCGAACTTATGACA 254 495 2205 Antisense
GTATTACTCATTGGTGTCTCGTCAA 357 451 2244 Antisense
Sequence Source Affymetrix Proprietary Database