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[193420_s_at]

Description C48B4.4A /REP_DB=WormBase Gene ID /WP=CE24856 /GEN=ced-7 /TR=SW:P34358 /GB=CAA82383.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ATP-binding transport protein
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 77      4grp_highest_8_8 > 53      4grp_high_8_8 > 09      6grp_highest_nonorm > 95      6grp_total > 77      4grp_total > 30      6grp_highest_sub > Da      6grp_cgc > 48      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 403
1 2 3 4 range
A 575.4
(3)
P 		226
(-2.3)
P 		180.5
(-3)
P 		486.4
(1.6)
P 		395
B 583.7
(3)
P 		424.1
(0.1)
P 		253
(-3)
P 		480.3
(1.1)
P 		331
C 574.8
(3)
P 		259.6
(-3)
P 		326.4
(-1.7)
P 		492.8
(1.4)
P 		315
avr 578
(3) 		303.2
(-2.1) 		253.3
(-3) 		486.5
(1.3) 		325

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 915
1 2 3 4 5 6 range
A 516.3
(-2.1)
P 		635.1
(-1.3)
P 		381.7
(-3)
P 		617.6
(-1.5)
P 		821.3
(-0.1)
P 		1296.2
(3)
P 		915
B 573.2
(-2.1)
P 		491
(-3)
P 		635.7
(-1.4)
P 		720
(-0.5)
P 		664.9
(-1.1)
P 		1045.7
(3)
P 		555
C 576
(-3)
P 		696.9
(-2)
P 		600.8
(-2.8)
P 		720.4
(-1.8)
P 		703
(-1.9)
P 		1279.4
(3)
P 		703
avr 555.2
(-2.9) 		607.7
(-2.4) 		539.4
(-3) 		686
(-1.7) 		729.7
(-1.3) 		1207.1
(3) 		668
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 162
1 2 3 4 range
A 209.5
(3)
P 		49
(-2.9)
P 		47.2
(-3)
P 		71.2
(-2.1)
P 		162
B 186.1
(3)
P 		104.7
(-0.8)
P 		58.6
(-3)
P 		102.4
(-0.9)
P 		128
C 190.3
(3)
P 		74.6
(-3)
P 		113.7
(-1)
P 		83.1
(-2.6)
P 		116
avr 195.3
(3) 		76.1
(-2.9) 		73.2
(-3) 		85.6
(-2.4) 		122

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 345
1 2 3 4 5 6 range
A 95.2
(-2.7)
P 		225.9
(0.7)
P 		83.1
(-3)
P 		156.6
(-1.1)
P 		247.8
(1.3)
P 		315.6
(3)
P 		233
B 199.4
(-1.9)
P 		163.4
(-2.8)
P 		154.4
(-3)
P 		190.7
(-2.1)
P 		270.2
(-0)
P 		389.9
(3)
P 		236
C 213.5
(-1.5)
P 		212.6
(-1.6)
P 		152.9
(-2.8)
P 		144.9
(-3)
P 		227.5
(-1.3)
P 		428.3
(3)
P 		283
avr 169.4
(-2) 		200.6
(-1.3) 		130.1
(-3) 		164.1
(-2.2) 		248.5
(-0.1) 		377.9
(3) 		248
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193420_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7922
Sequence Type Exemplar sequence
Representative Public ID C48B4.4A NCBI
Target Description C48B4.4A /REP_DB=WormBase Gene ID /WP=CE24856 /GEN=ced-7 /TR=SW:P34358 /GB=CAA82383.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ATP-binding 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_001026054(11), NM_001026055(11), NM_066714(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026054 NCBI Caenorhabditis elegans CEll Death abnormality family member (ced-7) (ced-7) mRNA, complete cds. 11/11 None
NM_001026055 NCBI Caenorhabditis elegans CEll Death abnormality family member (ced-7) (ced-7) mRNA, complete cds. 11/11 None
NM_066714 NCBI Caenorhabditis elegans CEll Death abnormality family member (ced-7) (ced-7) mRNA, complete cds. 11/11 A 
SNAP00000040765 ENSEMBL cdna:SNAP chromosome:CEL140:III:9570583:9573984:-1 11/11 None
GENEFINDER00000040776 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9570583:9579768:-1 11/11 None
C48B4.4b ENSEMBL cdna:known chromosome:CEL140:III:9570289:9579015:-1 gene:C48B4.4 11/11 None
C48B4.4c ENSEMBL cdna:known chromosome:CEL140:III:9570294:9579976:-1 gene:C48B4.4 11/11 A 
C48B4.4a ENSEMBL cdna:known chromosome:CEL140:III:9570583:9579015:-1 gene:C48B4.4 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
chrIII:9570578-9579011(-) 100.0 100.0
Public Domain and Genome References
Ensembl C48B4.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA82384 Hypothetical protein C48B4.4b [Caenorhabditis elegans] ref|NP_001021225.1| CEll Death abnormality family member (ced-7) [Caenorhabditis elegans] 0.0
blast F88559 protein C48B4.4b [imported] - Caenorhabditis elegans 0.0
blast CAA82383 Hypothetical protein C48B4.4a [Caenorhabditis elegans] ref|NP_499115.2| CEll Death abnormality family member (ced-7) [Caenorhabditis elegans] 0.0
blast CAC42271 Hypothetical protein C48B4.4c [Caenorhabditis elegans] ref|NP_001021226.1| CEll Death abnormality family member (ced-7) [Caenorhabditis elegans] sp|P34358|CED7_CAEEL ABC transporter ced-7 (Cell death protein 7) gb|AAC24116.1| ATP-binding cassette transporter [Caenorhabditis elegans] 0.0
blast S60124 transport protein homolog C48B4.4 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003439 EMBL-EBI ABC transporter 1.2E-52
Pfam IPR003439 EMBL-EBI ABC transporter 3.3E-41
Pfam IPR003439 EMBL-EBI ABC transporter 1.2E-52
Pfam IPR003439 EMBL-EBI ABC transporter 3.3E-41
Pfam IPR003439 EMBL-EBI ABC transporter 3.3E-41
Pfam IPR003439 EMBL-EBI ABC transporter 3.3E-41
Pfam IPR003439 EMBL-EBI ABC transporter 1.2E-52
Pfam IPR003439 EMBL-EBI ABC transporter 3.3E-41
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001021225.1 12 254-276,304-326,336-358,389-411,434-456,947-969,1111-1133,1154-1176,1186-1208,1221-1243,1253-1275,1296-1315
NP_001021226.1 12 254-276,304-326,336-358,389-411,434-456,960-982,1124-1146,1167-1189,1199-1221,1234-1256,1266-1288,1309-1328
NP_499115.2 12 254-276,304-326,336-358,389-411,434-456,947-969,1109-1131,1152-1174,1184-1206,1219-1241,1251-1273,1294-1313
C48B4.4b 12 254-276,304-326,336-358,389-411,434-456,947-969,1111-1133,1154-1176,1186-1208,1221-1243,1253-1275,1296-1315
C48B4.4c 12 254-276,304-326,336-358,389-411,434-456,960-982,1124-1146,1167-1189,1199-1221,1234-1256,1266-1288,1309-1328
C48B4.4a 12 254-276,304-326,336-358,389-411,434-456,947-969,1109-1131,1152-1174,1184-1206,1219-1241,1251-1273,1294-1313
SNAP00000040765 7 101-123,244-266,287-309,319-341,354-376,386-408,429-448
GENEFINDER00000040776 12 321-343,371-393,403-425,456-478,501-523,1025-1047,1187-1209,1230-1252,1262-1284,1297-1319,1329-1351,1372-1391
Sequence
Target Sequence 
>C. ELEGANS:193420_S_AT
gctgataagctcgttagattctacagtggtggacagaagagaaaaatatcagttggagtt
gcacttctcgccccgacacagatgattattctagatgaaccaactgctggaattgatcca
aaagctagaagagaagtatgggaattgcttttatggtgtagagagcattcaaatagtgca
ttgatgttaacatctcattcaatggatgaatgtgaagcattgtgctcacgaattgccgtg
cttaatcgaggatcattgattgcaattggatccagtcaagagcttaaatcattatacgga
aataattatacaatgacattgagtctttatgaaccaaatcaacgagatatggttgttcaa
ttggttcaaacaagattaccgaattctgttcttaaaactacatcaacgaacaaaacatta
aatttgaagtggcagattccgaaagaaaaggaagattgttggtcggccaaattcgaaatg
gtacaggcactggctaaagatttaggagtcaaagacttcatattagctcagtcctccctt
gaagaaacattccttcgacttgccggtctcgacgaagatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTGATAAGCTCGTTAGATTCTACA 29 297 4453 Antisense
TCGCCCCGACACAGATGATTATTCT 563 599 4520 Antisense
GTATGGGAATTGCTTTTATGGTGTA 108 457 4588 Antisense
GAAGCATTGTGCTCACGAATTGCCG 499 341 4666 Antisense
GAATTGCCGTGCTTAATCGAGGATC 706 321 4682 Antisense
GAAGATTGTTGGTCGGCCAAATTCG 45 337 4903 Antisense
ATTCGAAATGGTACAGGCACTGGCT 263 9 4923 Antisense
GACTTCATATTAGCTCAGTCCTCCC 594 369 4966 Antisense
CTCAGTCCTCCCTTGAAGAAACATT 148 229 4979 Antisense
GAAGAAACATTCCTTCGACTTGCCG 206 339 4993 Antisense
GACTTGCCGGTCTCGACGAAGATCA 640 369 5009 Antisense
Sequence Source Affymetrix Proprietary Database