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[171995_x_at]

Description g5106724 /REP_DB=GenBank Identifier /GB=AF145376.1 /PROTEIN_GB=AAD39815.1 /CHR=3 /FEA=Mapped Transcript /DEF=LIT-1
Cluster 6grp_highest_10_10 > 80      6grp_high1_10_10 > 09      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 76      6grp_total > 04      4grp_total > 17      6grp_cgc > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 998
1 2 3 4 range
A 910.3
(-3)
P 		969.1
(-2.6)
P 		954.4
(-2.7)
P 		1861.8
(3)
P 		952
B 863.8
(-3)
P 		1255.2
(-0.2)
P 		1284.6
(-0)
P 		1716.3
(3)
P 		853
C 874.8
(-3)
P 		1392.9
(2.8)
P 		1047.9
(-1)
P 		1407.3
(3)
P 		533
avr 883
(-3) 		1205.7
(-0.5) 		1095.6
(-1.4) 		1661.8
(3) 		779

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 882
1 2 3 4 5 6 range
A 1283.6
(1.2)
P 		1474.4
(3)
P 		846.3
(-3)
P 		861.8
(-2.9)
P 		1143.7
(-0.2)
P 		1076.2
(-0.8)
P 		628
B 1190.7
(1.1)
P 		1133.2
(0.6)
P 		809.8
(-2.6)
P 		1381.1
(3)
P 		1065.3
(-0.1)
P 		771.6
(-3)
P 		610
C 1549.9
(3)
P 		926.6
(-1.2)
P 		1038.3
(-0.5)
P 		993.3
(-0.8)
P 		1182.5
(0.5)
P 		667.6
(-3)
P 		882
avr 1341.4
(3) 		1178.1
(1.1) 		898.1
(-2.3) 		1078.7
(-0.1) 		1130.5
(0.5) 		838.5
(-3) 		503
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 190
1 2 3 4 range
A 331.4
(3)
P 		210.4
(-3)
P 		249.5
(-1.1)
P 		272.5
(0.1)
P 		121
B 275.5
(-3)
P 		310
(-0.7)
P 		297.7
(-1.5)
P 		365.7
(3)
P 		90
C 289.6
(-1.1)
P 		400.5
(3)
P 		365.2
(1.7)
P 		237.3
(-3)
P 		163
avr 298.8
(-0.2) 		307
(3) 		304.1
(1.9) 		291.8
(-3) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 390
1 2 3 4 5 6 range
A 236.6
(-2.1)
P 		524.4
(3)
P 		184.3
(-3)
P 		218.6
(-2.4)
P 		345.1
(-0.2)
P 		262
(-1.6)
P 		340
B 414.3
(2.5)
P 		377.2
(1.6)
P 		196.6
(-3)
P 		365.8
(1.3)
P 		432.8
(3)
P 		287.7
(-0.7)
P 		236
C 574.5
(3)
P 		282.7
(-1.7)
P 		264.3
(-2)
P 		199.8
(-3)
P 		382.6
(-0.1)
P 		223.5
(-2.6)
P 		375
avr 408.5
(3) 		394.8
(2.6) 		215.1
(-3) 		261.4
(-1.6) 		386.8
(2.3) 		257.7
(-1.7) 		193
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171995_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19822
Sequence Type Exemplar sequence
Representative Public ID 5106724 NCBI
Target Description g5106724 /REP_DB=GenBank Identifier /GB=AF145376.1 /PROTEIN_GB=AAD39815.1 /CHR=3 /FEA=Mapped Transcript /DEF=LIT-1
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_001027637(11), NM_001027634(11), NM_001027635(11), NM_001027638(11), NM_001027636(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027637 NCBI Caenorhabditis elegans Loss of InTestine family member (lit-1) (lit-1) mRNA, complete cds. 11/11 None
NM_001027634 NCBI Caenorhabditis elegans Loss of InTestine family member (lit-1) (lit-1) mRNA, complete cds. 11/11 None
NM_001027635 NCBI Caenorhabditis elegans Loss of InTestine family member (lit-1) (lit-1) mRNA, complete cds. 11/11 None
NM_001027638 NCBI Caenorhabditis elegans Loss of InTestine family member (lit-1) (lit-1) mRNA, complete cds. 11/11 None
NM_001027636 NCBI Caenorhabditis elegans Loss of InTestine family member (lit-1) (lit-1) mRNA, complete cds. 9/11 None
GENEFINDER00000027468 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13713586:13722979:1 9/11 None
SNAP00000027463 ENSEMBL cdna:SNAP chromosome:CEL140:III:13721225:13722979:1 9/11 None
W06F12.1d ENSEMBL cdna:known chromosome:CEL140:III:13701509:13723917:1 gene:W06F12.1 11/11 A 
W06F12.1a ENSEMBL cdna:known chromosome:CEL140:III:13713561:13723089:1 gene:W06F12.1 11/11 A 
W06F12.1e ENSEMBL cdna:known chromosome:CEL140:III:13714088:13722979:1 gene:W06F12.1 9/11 A 
W06F12.1b ENSEMBL cdna:known chromosome:CEL140:III:13717369:13723917:1 gene:W06F12.1 11/11 A 
W06F12.1c ENSEMBL cdna:known chromosome:CEL140:III:13718890:13722979:1 gene:W06F12.1 9/11 A 
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:13713556-13723085(+) 100.0 100.0
Public Domain and Genome References
Ensembl W06F12.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAH10786 Hypothetical protein W06F12.1d [Caenorhabditis elegans] emb|CAH10804.1| Hypothetical protein W06F12.1d [Caenorhabditis elegans] ref|NP_001022808.1| Loss of InTestine family member (lit-1) [Caenorhabditis elegans] 0.0
blast CAB05827 Hypothetical protein W06F12.1a [Caenorhabditis elegans] ref|NP_001022805.1| Loss of InTestine family member (lit-1) [Caenorhabditis elegans] gb|AAD39815.1| LIT-1 [Caenorhabditis elegans] 0.0
blast CAB60300 Hypothetical protein W06F12.1b [Caenorhabditis elegans] ref|NP_001022806.1| Loss of InTestine family member (lit-1) [Caenorhabditis elegans] gb|AAD37361.1| protein kinase LIT-1b [Caenorhabditis elegans] 0.0
Protein Families
Method ID Description E-Value
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 2.0E-69
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 9.0E-70
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 7.0E-70
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 5.0E-70
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 4.0E-70
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 2.0E-70
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 1.0E-51
hanks 3.1.7 CMCG Group; CMGC I Cyclin-dependent (CDKs) and close relatives; PCTAIRE1 2.0E-71
hanks 3.1.7 CMCG Group; CMGC I Cyclin-dependent (CDKs) and close relatives; PCTAIRE1 6.0E-72
hanks 3.1.7 CMCG Group; CMGC I Cyclin-dependent (CDKs) and close relatives; PCTAIRE1 3.0E-72
hanks 3.1.7 CMCG Group; CMGC I Cyclin-dependent (CDKs) and close relatives; PCTAIRE1 2.0E-72
hanks 3.1.7 CMCG Group; CMGC I Cyclin-dependent (CDKs) and close relatives; PCTAIRE1 8.0E-73
hanks 3.1.7 CMCG Group; CMGC I Cyclin-dependent (CDKs) and close relatives; PCTAIRE1 3.0E-52
Protein Domains
Database ID Description E-Value
Pfam IPR000719 EMBL-EBI Protein kinase 3.5E-83
Pfam IPR000719 EMBL-EBI Protein kinase 3.5E-83
Pfam IPR000719 EMBL-EBI Protein kinase 3.5E-83
Pfam IPR000719 EMBL-EBI Protein kinase 3.5E-83
Pfam IPR000719 EMBL-EBI Protein kinase 3.5E-83
Pfam IPR000719 EMBL-EBI Protein kinase 3.5E-83
Pfam IPR000719 EMBL-EBI Protein kinase 3.3E-60
Sequence
Target Sequence 
>C. ELEGANS:171995_X_AT
ggctgtacaagatcgcatcgcctgatgataagaatcacgaggcggtggatttactgcaga
agcttctgcacttcgatccggataagagaattagtgtggaggaggcactgcaacatcgat
atttagaagaagggcgtctgcgattccactcgtgtatgtgctcgtgctgctatacgaaac
caaatatgccgtcgaggttgttcgcgcaggatttggatccacgtcacgagagcccattcg
atccaaagtgggagaaggacatgtcccgactatcgatgtttgagctccgcgagaaaatgt
accaatttgtgatggacaggcctgcgttgtacggtgtcgccctttgcataaatccccaat
cggcggcctacaagaactttgcaagctcgtcagttgctcaggcctcagaattacctccat
caccgcaggcttggtgacaaaaaaatgattattgatttatattccatttgttagcctctt
caactcaccaataatcattttcagtcgtctcgcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCTGTACAAGATCGCATCGCCTGA 147 541 1481 Antisense
ATTCCACTCGTGTATGTGCTCGTGC 227 7 1623 Antisense
AATATGCCGTCGAGGTTGTTCGCGC 546 171 1663 Antisense
GATTTGGATCCACGTCACGAGAGCC 151 427 1690 Antisense
CACGAGAGCCCATTCGATCCAAAGT 589 197 1705 Antisense
CGACTATCGATGTTTGAGCTCCGCG 633 251 1747 Antisense
AATCGGCGGCCTACAAGAACTTTGC 150 169 1838 Antisense
TTGCAAGCTCGTCAGTTGCTCAGGC 432 701 1859 Antisense
TGCTCAGGCCTCAGAATTACCTCCA 325 581 1875 Antisense
TCCATTTGTTAGCCTCTTCAACTCA 199 591 1943 Antisense
AATAATCATTTTCAGTCGTCTCGCC 517 171 1970 Antisense
Sequence Source GenBank