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[192545_at] vesicle trafficking protein sec22b

Description F55A4.1 /REP_DB=WormBase Gene ID /WP=CE19895 /TR=Q94241 /GB=AAB07559.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=vesicle trafficking protein sec22b
Cluster 6grp_highest_10_10 > 02      6grp_high1_10_10 > 20      4grp_highest_8_8 > 12      4grp_high_8_8 > 38      6grp_highest_nonorm > 52      6grp_total > 50      4grp_total > 41      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 424
1 2 3 4 range
A 522.9
(-3)
P 		861.5
(3)
P 		824.1
(2.3)
P 		850.6
(2.8)
P 		339
B 511.3
(-3)
P 		822.7
(2.8)
P 		833.7
(3)
P 		780.8
(2)
P 		322
C 528.5
(-3)
P 		837.3
(1.6)
P 		935.6
(3)
P 		711.1
(-0.3)
P 		407
avr 520.9
(-3) 		840.5
(2.6) 		864.5
(3) 		780.8
(1.5) 		344

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 563
1 2 3 4 5 6 range
A 713.6
(0.2)
P 		600.6
(-1)
P 		959.7
(3)
P 		789.3
(1.1)
P 		423.9
(-3)
P 		477.3
(-2.4)
P 		536
B 825.9
(3)
P 		676.8
(0.9)
P 		710.1
(1.4)
P 		702.3
(1.3)
P 		397.1
(-3)
P 		436.1
(-2.5)
P 		429
C 693.6
(0.6)
P 		674.4
(0.3)
P 		643.9
(-0.1)
P 		872.3
(3)
P 		434.2
(-3)
P 		477.8
(-2.4)
P 		438
avr 744.4
(2.3) 		650.6
(0.8) 		771.2
(2.7) 		788
(3) 		418.4
(-3) 		463.7
(-2.3) 		370
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 206
1 2 3 4 range
A 190.4
(1.3)
P 		187
(1.1)
P 		215.4
(3)
P 		124.5
(-3)
P 		91
B 163.1
(-3)
P 		203.2
(3)
P 		193.2
(1.5)
P 		166.4
(-2.5)
P 		40
C 174.9
(-1.4)
P 		240.7
(0.5)
P 		326.1
(3)
P 		119.9
(-3)
P 		206
avr 176.1
(-0.8) 		210.3
(1.1) 		244.9
(3) 		136.9
(-3) 		108

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 171
1 2 3 4 5 6 range
A 131.5
(-2.1)
P 		213.6
(3)
P 		209
(2.7)
P 		200.2
(2.2)
P 		127.9
(-2.3)
P 		116.2
(-3)
P 		97
B 287.4
(3)
P 		225.3
(0)
P 		172.4
(-2.5)
P 		186
(-1.8)
P 		161.3
(-3)
P 		162.6
(-2.9)
P 		126
C 257.1
(3)
P 		205.8
(0.4)
P 		163.9
(-1.8)
P 		175.4
(-1.2)
P 		140.5
(-3)
P 		159.9
(-2)
P 		117
avr 225.3
(3) 		214.9
(2.2) 		181.8
(-0.2) 		187.2
(0.2) 		143.2
(-3) 		146.2
(-2.8) 		82
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192545_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18495
Sequence Type Exemplar sequence
Representative Public ID F55A4.1 NCBI
Target Description F55A4.1 /REP_DB=WormBase Gene ID /WP=CE19895 /TR=Q94241 /GB=AAB07559.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=vesicle trafficking protein sec22b
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_075797(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075797 NCBI Caenorhabditis elegans F55A4.1 (F55A4.1) mRNA, complete cds. 11/11 None
SNAP00000039515 ENSEMBL cdna:SNAP chromosome:CEL140:X:1035549:1036243:1 9/11 None
GENEFINDER00000039523 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1035549:1036899:1 11/11 None
F55A4.1 ENSEMBL cdna:known chromosome:CEL140:X:1035539:1036994:1 gene:F55A4.1 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
chrX:1035548-1036899(+) 100.0 100.0
Public Domain and Genome References
Gene Title vesicle trafficking protein sec22b
Ensembl F55A4.1
Entrez Gene 180456 Entrez gene
SwissProt Q94241 EMBL-EBI
WormBase CE19895 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264373_AT vesicle transport protein SEC22, putative at
ATGENOME1:19212_AT vesicle transport protein SEC22, putative at
CANINE:1605501_AT similar to SEC22 vesicle trafficking protein-like 1 cfa
CANINE:1595275_S_AT similar to SEC22 vesicle trafficking protein-like 1 cfa
CANINE_2:CFA.592.1.S1_AT similar to SEC22 vesicle trafficking protein-like 1 cfa
CANINE_2:CFAAFFX.16788.1.S1_AT similar to SEC22 vesicle trafficking protein-like 1 cfa
CANINE_2:CFAAFFX.16788.1.S1_S_AT similar to SEC22 vesicle trafficking protein-like 1 cfa
DROSOPHILA_2:1635709_AT dm
DROSGENOME1:155109_AT dm
CHICKEN:GGAAFFX.12423.1.S1_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) gga
HG-U133A:209206_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U133A_2:209206_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U133_PLUS_2:209206_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U133A:209207_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U133_PLUS_2:209207_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U133A_2:209207_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HU35KSUBA:W23469_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HU35KSUBD:RC_AA455917_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
U133_X3P:G12655032_3P_A_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
U133_X3P:HS.50785.0.A2_3P_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U95AV2:41597_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
U133_X3P:HS.283130.0.S1_3P_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U133_PLUS_2:233020_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U133B:233020_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U133A_2:214257_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-FOCUS:214257_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U133_PLUS_2:214257_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U133A:214257_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U95AV2:41598_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HG-U95E:87895_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HU35KSUBA:AA426156_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
HU35KSUBA:R64199_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
U133_X3P:HS.50785.1.S1_3P_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) hs
MU11KSUBA:U91538_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) mm
MU11KSUBB:MSA.21399.0_S_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) mm
MG-U74AV2:103953_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) mm
MG-U74BV2:110816_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) mm
MOE430A:1449063_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) mm
MOUSE430A_2:1449063_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) mm
MOUSE430_2:1449063_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) mm
MG-U74BV2:117069_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae), mRNA (cDNA clone MGC:5885 IMAGE:3481731) mm
MU19KSUBB:TC29972_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae), mRNA (cDNA clone MGC:5885 IMAGE:3481731) mm
MU19KSUBC:TC38087_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae), mRNA (cDNA clone MGC:5885 IMAGE:3481731) mm
RG-U34B:RC_AA848780_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) (predicted) rn
RAE230B:1377691_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) (predicted) rn
RAT230_2:1377691_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) (predicted) rn
RAE230A:1389138_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) (predicted) rn
RAT230_2:1389138_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) (predicted) rn
RG-U34B:RC_AA945574_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) (predicted) rn
RG-U34B:RC_AI030796_AT SEC22 vesicle trafficking protein-like 1 (S. cerevisiae) (predicted) rn
YEAST_2:1770987_AT R-SNARE protein; assembles into SNARE complex with Bet1p, Bos1p and Sed5p; cycles between the ER and Golgi complex; involved in anterograde and retrograde transport between the ER and Golgi; synaptobrevin homolog Sc
Protein Similarities
Method ID Description E-Value
blast AAB07559 Hypothetical protein F55A4.1 [Caenorhabditis elegans] ref|NP_508198.1| F55A4.1 [Caenorhabditis elegans] 1.0E-116
blast CAE63581 Hypothetical protein CBG08070 [Caenorhabditis briggsae] 1.0E-104
blast AAB07559 Hypothetical protein F55A4.1 [Caenorhabditis elegans] ref|NP_508198.1| F55A4.1 [Caenorhabditis elegans] 2.0E-88
blast CAE63581 Hypothetical protein CBG08070 [Caenorhabditis briggsae] 2.0E-79
blast AAI06290 Unknown (protein for MGC:130778) [Xenopus laevis] 3.0E-48
Protein Domains
Database ID Description E-Value
Pfam IPR001388 EMBL-EBI Synaptobrevin 1.6E-24
Pfam IPR001388 EMBL-EBI Synaptobrevin 1.7E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508198.1 1 191-213
F55A4.1 1 191-213
GENEFINDER00000039523 1 191-213
Sequence
Target Sequence 
>C. ELEGANS:192545_AT
gagacggccttattttggccacatcgattgaaggaaacaatgacggcagtggcgactcaa
gtatggtgaaatactcgaatcaagcaaaaatgctcttcaagaagctgaatggggctccag
cacagcaaagtgtagagtcaggaccatttgtttttcactacataatcgtccaaaacattt
gcgccctggtcctctgtgataggaatttcccgcgtaaagttgccttccagtacctcagtg
acattggccaagagtttctaaacgagaacagttcgagaatcgagcaagtcgttcgtccat
accatttcctcgaatttgacaaatacatccaacaagctaaacaaagatatggagacacca
acaaacacgcaatgaatacggtatccaatgagctccaggacgtcacaagaattatggtca
ctaatatcgaagatgtcattcatcgaggagaagctttgaatattctggaaaaccgagcat
ccgaattgtctggaatgagcaaaaaatacagggatgacgcgaaagccctgaatcgacgat
caaccattttcaaagtagcagcctcgattggaattgccggag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGACGGCCTTATTTTGGCCACATC 500 391 41 Antisense
TGAATGGGGCTCCAGCACAGCAAAG 425 575 146 Antisense
GTCAGGACCATTTGTTTTTCACTAC 200 467 177 Antisense
AATCGTCCAAAACATTTGCGCCCTG 235 145 204 Antisense
CGCCCTGGTCCTCTGTGATAGGAAT 234 255 222 Antisense
TCCAGTACCTCAGTGACATTGGCCA 610 585 266 Antisense
ATCGAGCAAGTCGTTCGTCCATACC 62 37 319 Antisense
GTCCATACCATTTCCTCGAATTTGA 86 475 335 Antisense
TCCAATGAGCTCCAGGACGTCACAA 478 587 424 Antisense
GACGCGAAAGCCCTGAATCGACGAT 562 379 556 Antisense
GCAGCCTCGATTGGAATTGCCGGAG 386 313 598 Antisense
Sequence Source Affymetrix Proprietary Database