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[191738_at] transcription factor S-II

Description T24H10.1 /REP_DB=WormBase Gene ID /WP=CE03726 /TR=SW:P52652 /GB=CAA90943.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=transcription factor S-II
Cluster 6grp_highest_10_10 > 98      6grp_high1_10_10 > 89      4grp_highest_8_8 > 19      4grp_high_8_8 > 39      6grp_highest_nonorm > 74      6grp_total > 98      4grp_total > 40      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 207
1 2 3 4 range
A 511.5
(0.8)
P 		462.6
(-2)
P 		550.1
(3)
P 		445.6
(-3)
P 		105
B 430.3
(-3)
P 		525.1
(1.4)
P 		522.1
(1.2)
P 		560.8
(3)
P 		131
C 557.7
(-0.9)
P 		514.3
(-3)
P 		637.6
(3)
P 		558.3
(-0.9)
P 		123
avr 499.8
(-3) 		500.7
(-2.9) 		569.9
(3) 		521.6
(-1.1) 		70

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 353
1 2 3 4 5 6 range
A 589.8
(-3)
P 		638.4
(-2)
P 		693.3
(-0.8)
P 		716.3
(-0.3)
P 		637.9
(-2)
P 		872.6
(3)
P 		283
B 644.1
(-1.1)
P 		590.1
(-2.1)
P 		546.2
(-3)
P 		563.4
(-2.7)
P 		850.4
(3)
P 		813.5
(2.3)
P 		304
C 714.3
(-0)
P 		538.8
(-3)
P 		637.7
(-1.3)
P 		634.2
(-1.4)
P 		891.8
(3)
P 		799
(1.4)
P 		353
avr 649.4
(-1.5) 		589.1
(-3) 		625.7
(-2.1) 		638
(-1.8) 		793.4
(2.1) 		828.4
(3) 		239
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 157
1 2 3 4 range
A 186.3
(3)
P 		100.4
(-1.3)
P 		143.8
(0.9)
P 		65.2
(-3)
P 		121
B 137.2
(3)
P 		129.7
(0.5)
P 		121
(-2.5)
P 		119.5
(-3)
P 		18
C 184.6
(1.2)
P 		147.9
(-0.5)
P 		222.2
(3)
P 		94.1
(-3)
P 		128
avr 169.4
(3) 		126
(-0.4) 		162.3
(2.4) 		92.9
(-3) 		77

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 237
1 2 3 4 5 6 range
A 108.7
(-3)
P 		227
(3)
P 		151
(-0.9)
P 		181.7
(0.7)
P 		192.5
(1.3)
P 		212.4
(2.3)
P 		118
B 224.1
(-0.4)
P 		196.4
(-1.2)
P 		132.6
(-3)
P 		149.2
(-2.5)
P 		345.5
(3)
P 		303.3
(1.8)
P 		213
C 264.8
(2.1)
P 		164.4
(-1.6)
P 		162.3
(-1.7)
P 		127.5
(-3)
P 		288.6
(3)
P 		267.5
(2.2)
P 		161
avr 199.2
(-0.6) 		195.9
(-0.8) 		148.6
(-3) 		152.8
(-2.8) 		275.5
(3) 		261.1
(2.3) 		127
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191738_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3098
Sequence Type Exemplar sequence
Representative Public ID T24H10.1 NCBI
Target Description T24H10.1 /REP_DB=WormBase Gene ID /WP=CE03726 /TR=SW:P52652 /GB=CAA90943.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=transcription factor S-II
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_063540(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063540 NCBI Caenorhabditis elegans T24H10.1 (T24H10.1) mRNA, complete cds. 11/11 None
SNAP00000021887 ENSEMBL cdna:SNAP chromosome:CEL140:II:9099287:9100364:1 11/11 None
GENEFINDER00000021904 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9099287:9100364:1 11/11 None
T24H10.1 ENSEMBL cdna:known chromosome:CEL140:II:9099287:9100364:1 gene:T24H10.1 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
chrII:9099283-9100361(+) 100.0 100.0
Public Domain and Genome References
Gene Title transcription factor S-II
Ensembl T24H10.1
Entrez Gene 174450 Entrez gene
SwissProt P52652 EMBL-EBI
WormBase CE03726 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1589459_S_AT similar to transcription elongation factor A (SII) 1 cfa
CANINE_2:CFA.11050.1.S1_S_AT similar to transcription elongation factor A (SII) 1 cfa
DROSOPHILA_2:1633430_AT RNA polymerase II elongation factor dm
DROSGENOME1:154696_AT RNA polymerase II elongation factor dm
CHICKEN:GGA.1853.1.S1_S_AT transcription elongation factor A (SII), 1 gga
CHICKEN:GGAAFFX.13179.1.S1_S_AT transcription elongation factor A (SII), 1 gga
HG-U95AV2:1073_AT transcription elongation factor A (SII), 1 hs
HC-G110:1073_AT transcription elongation factor A (SII), 1 hs
HUGENEFL:M81601_AT transcription elongation factor A (SII), 1 hs
U133_X3P:HS2.376360.1.A1_3P_AT transcription elongation factor A (SII), 1 hs
U133_X3P:HS.78869.1.S1_3P_A_AT transcription elongation factor A (SII), 1 hs
HG-U133_PLUS_2:1566207_AT transcription elongation factor A (SII), 1 hs
HG-U133A_2:216241_S_AT transcription elongation factor A (SII), 1 hs
HG-FOCUS:216241_S_AT transcription elongation factor A (SII), 1 hs
HG-U133_PLUS_2:216241_S_AT transcription elongation factor A (SII), 1 hs
HG-U133A:216241_S_AT transcription elongation factor A (SII), 1 hs
HG-U95D:73626_F_AT transcription elongation factor A (SII), 1 hs
HG-U133_PLUS_2:1566208_AT transcription elongation factor A (SII), 1 hs
HG-U95C:57873_AT Transcription elongation factor A (SII), 1 hs
HU35KSUBB:RC_N51033_AT Transcription elongation factor A (SII), 1 hs
HU35KSUBB:RC_N70130_AT Transcription elongation factor A (SII), 1 hs
MG-U74AV2:101528_AT transcription elongation factor A (SII) 1 mm
MG-U74AV2:101529_G_AT transcription elongation factor A (SII) 1 mm
MU11KSUBA:M18209_S_AT transcription elongation factor A (SII) 1 mm
MU11KSUBB:MSA.43200.0_S_AT transcription elongation factor A (SII) 1 mm
MU11KSUBB:MSA.28627.0_F_AT transcription elongation factor A (SII) 1 mm
MG-U74AV2:101527_AT transcription elongation factor A (SII) 1 mm
MOE430A:1419257_AT transcription elongation factor A (SII) 1 mm
MOUSE430A_2:1419257_AT transcription elongation factor A (SII) 1 mm
MOUSE430_2:1419257_AT transcription elongation factor A (SII) 1 mm
MOE430A:1419258_AT transcription elongation factor A (SII) 1 mm
MOUSE430A_2:1419258_AT transcription elongation factor A (SII) 1 mm
MOUSE430_2:1419258_AT transcription elongation factor A (SII) 1 mm
MU19KSUBB:TC26410_AT Transcription elongation factor A (SII) 1, mRNA (cDNA clone MGC:6153 IMAGE:3590733) mm
MU19KSUBC:TC36870_S_AT Transcription elongation factor A (SII) 1, mRNA (cDNA clone MGC:6153 IMAGE:3590733) mm
RAT230_2:1394724_AT transcription elongation factor A (SII) 1 (predicted) rn
RAE230B:1394724_AT transcription elongation factor A (SII) 1 (predicted) rn
RAE230A:1367485_AT transcription elongation factor A (SII) 1 (predicted) rn
RAE230B:1367485_AT transcription elongation factor A (SII) 1 (predicted) rn
RAT230_2:1367485_AT transcription elongation factor A (SII) 1 (predicted) rn
RG-U34B:RC_AA997486_AT similar to transcription elongation factor IIS - mouse rn
RG-U34C:RC_AI146090_AT similar to transcription elongation factor IIS - mouse rn
RAE230A:1367485_AT similar to transcription elongation factor IIS - mouse rn
RAE230B:1367485_AT similar to transcription elongation factor IIS - mouse rn
RAT230_2:1367485_AT similar to transcription elongation factor IIS - mouse rn
RAE230B:1382861_AT similar to transcription elongation factor IIS - mouse rn
RAT230_2:1382861_AT similar to transcription elongation factor IIS - mouse rn
RAE230B:1392658_AT Transcription elongation factor A (SII) 1 (predicted) rn
RAT230_2:1392658_AT Transcription elongation factor A (SII) 1 (predicted) rn
YEAST_2:1775958_AT General transcription elongation factor TFIIS, enables RNA polymerase II to read through blocks to elongation by stimulating cleavage of nascent transcripts stalled at transcription arrest sites Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6350 transcription inferred from electronic annotation QuickGO AmiGO
6354 RNA elongation inferred from electronic annotation QuickGO AmiGO
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
6952 defense response inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA90943 Hypothetical protein T24H10.1 [Caenorhabditis elegans] ref|NP_495941.1| T24H10.1 [Caenorhabditis elegans] sp|P52652|TFS2_CAEEL Putative transcription elongation factor S-II (TFIIS) 1.0E-166
blast CAE59801 Hypothetical protein CBG03263 [Caenorhabditis briggsae] 1.0E-142
blast NP_035671 transcription elongation factor A (SII) 1 [Mus musculus] gb|AAH83127.1| Transcription elongation factor A (SII) 1 [Mus musculus] gb|AAH61490.1| Transcription elongation factor A (SII) 1 [Mus musculus] dbj|BAE22787.1| unnamed protein product [Mus musculus] gb|AAH06022.1| Transcription elongation factor A (SII) 1 [Mus musculus] sp|P10711|TCEA1_MOUSE Transcription elongation factor A protein 1 (Transcription elongation factor S-II protein 1) (Transcription elongation factor TFIIS.o) gb|AAA40419.1| transcription factor S-II 7.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR001222 EMBL-EBI Transcription factor TFIIS 5.9E-26
Sequence
Target Sequence 
>C. ELEGANS:191738_AT
atcgaggctccatataagcggccagaaccatctagtcggccagaaatagttgctcaattt
gccagtgcatctttcccaccgaaacatcttgaaaatgacgagacccgtcttaaatctgca
caacttctactttcggcacttcggtttggagacatgccacaaggaacactcgatccagag
gagttagctgtccaaattgaagagaaactctattcggttcaccgtgatacaaacaagagt
tactcagcagctgttcgtagtcgcattttcaatcttcgtgataaaaagaaccttgctcta
cgtgaaaatgttctcactggtgtcgtccgtgctgaaaagtttgcaaccatgaccagcgaa
gaaatggcatccgctgaaatccgggagatgcgtgataaattcacgaaggaagctatccta
gaacatcaaatgagcgtccagcaaggaactccatcagacatgttcaagtgcggaaaatgt
ggaaagaagaattgcacctatactcagcttcaaactcgttctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCGAGGCTCCATATAAGCGGCCAG 603 35 352 Antisense
AAGCGGCCAGAACCATCTAGTCGGC 116 149 367 Antisense
TCAATTTGCCAGTGCATCTTTCCCA 664 633 405 Antisense
AGACCCGTCTTAAATCTGCACAACT 282 71 452 Antisense
TCTGCACAACTTCTACTTTCGGCAC 437 607 466 Antisense
CTTTCGGCACTTCGGTTTGGAGACA 20 223 481 Antisense
AGAGAAACTCTATTCGGTTCACCGT 677 67 552 Antisense
TACTCAGCAGCTGTTCGTAGTCGCA 170 591 592 Antisense
CGTAGTCGCATTTTCAATCTTCGTG 680 245 607 Antisense
AAAATGTTCTCACTGGTGTCGTCCG 198 133 656 Antisense
TATACTCAGCTTCAAACTCGTTCTT 232 661 850 Antisense
Sequence Source Affymetrix Proprietary Database