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Cluster Members
Consensus/Exemplar

GeneChip Array Information

Probe Set ID

186114_at

GeneChip Array

C. elegans Genome Array

Organism Common Name

Nematode

Probe Design Information

Transcript ID(Array Design)

affy.Ce.8580

Sequence Type

Exemplar sequence

Representative Public ID

Y45F10D.4 NCBI

Target Description

Y45F10D.4 /REP_DB=WormBase Gene ID /WP=CE16643 /TR=O45948 /GB=CAA16379.1 /SUBMIT=HINXTON /CHR=4 /FEA=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_070257(11)

Transcript Assignments

Representative Transcript	Description	Matching Probes	Related Probesets by Grade
NM_070257 NCBI	Caenorhabditis elegans Y45F10D.4 (Y45F10D.4) mRNA, complete cds.	11/11	None
SNAP00000025707 ENSEMBL	cdna:SNAP chromosome:CEL140:IV:13783943:13785018:1	11/11	None
GENEFINDER00000025724 ENSEMBL	cdna:GeneFinder chromosome:CEL140:IV:13783943:13784579:1	11/11	None
Y45F10D.4 ENSEMBL	cdna:known chromosome:CEL140:IV:13783928:13784648:1 gene:Y45F10D.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
chrIV:13783948-13784585(+)	100.0	100.0

Public Domain and Genome References

Gene Title

Ensembl

Y45F10D.4

Entrez Gene

178344 Entrez gene

SwissProt

O45948 EMBL-EBI

WormBase

CE16643 Wormbase

Functional Annotations

Ortholog

ID	Title	Organism
ATH1-121501:255369_AT	iron-sulfur cluster assembly complex protein, putative	at
CANINE:1584616_AT	similar to nitrogen fixation cluster-like	cfa
CANINE_2:CFA.10998.1.S1_AT	similar to nitrogen fixation cluster-like	cfa
CANINE_2:CFAAFFX.17652.1.S1_AT	similar to nitrogen fixation cluster-like	cfa
CANINE_2:CFAAFFX.17652.1.S1_S_AT	similar to nitrogen fixation cluster-like	cfa
DROSOPHILA_2:1624986_AT		dm
DROSGENOME1:151804_AT		dm
CHICKEN:GGA.7161.2.S1_A_AT	similar to ISCU2	gga
HUGENEFL:U47101_AT	NifU-like N-terminal domain containing	hs
HG-U133A:209075_S_AT	NifU-like N-terminal domain containing	hs
HG-U133_PLUS_2:209075_S_AT	NifU-like N-terminal domain containing	hs
HG-U133A_2:209075_S_AT	NifU-like N-terminal domain containing	hs
U133_X3P:G11545706_3P_A_AT	NifU-like N-terminal domain containing	hs
HG-U95AV2:39165_AT	NifU-like N-terminal domain containing	hs
HG-U95E:76288_AT	NifU-like N-terminal domain containing	hs
RG-U34C:RC_AI171212_AT	similar to nitrogen fixation cluster-like (predicted)	rn
RAE230A:1367467_AT	similar to nitrogen fixation cluster-like (predicted)	rn
RAE230B:1367467_AT	similar to nitrogen fixation cluster-like (predicted)	rn
RAT230_2:1367467_AT	similar to nitrogen fixation cluster-like (predicted)	rn
YEAST_2:1776923_AT	Conserved protein of the mitochondrial matrix, performs a scaffolding function during assembly of iron-sulfur clusters, interacts physically and functionally with yeast frataxin (Yfh1p); isu1 isu2 double mutant is inviable	Sc

Protein Similarities

Method	ID	Description	E-Value
blast	CAA16379	Hypothetical protein Y45F10D.4 [Caenorhabditis elegans] ref\|NP_502658.1\| Y45F10D.4 [Caenorhabditis elegans]	8.0E-83
blast	CAE74594	Hypothetical protein CBG22375 [Caenorhabditis briggsae]	3.0E-74
blast	CAA16379	Hypothetical protein Y45F10D.4 [Caenorhabditis elegans] ref\|NP_502658.1\| Y45F10D.4 [Caenorhabditis elegans]	5.0E-70
blast	CAE74594	Hypothetical protein CBG22375 [Caenorhabditis briggsae]	1.0E-62
blast	NP_989088	hypothetical protein LOC394688 [Xenopus tropicalis] gb\|AAH62501.1\| Hypothetical protein MGC76074 [Xenopus tropicalis]	2.0E-57

Protein Domains

Database	ID	Description	E-Value
Pfam	IPR002871 EMBL-EBI	Nitrogen-fixing NifU-like, N-terminal	8.5E-84
Pfam	IPR002871 EMBL-EBI	Nitrogen-fixing NifU-like, N-terminal	2.9E-70

Sequence

Target Sequence

>C. ELEGANS:186114_AT
cagttcagccgcgaaaacactcctgcacaagtttgcgttgccagcggcaacttcagttgc
tcagtatcacgagaaggttatcgatcactacgagaacccgcgaaatgtcggatcacttga
caagaacgatccaagcgtcggaacaggaatcgtcggcgctccagcttgtggagatgtcat
gaaattgcagattcgagtcgacgataacggaaaaatcatcgaagccaaattcaaaacatt
cggatgtggaagtgcaattgcctcatcttccctggcaaccgaatggattaacggaaaaac
tatcgattacgcgtcgaaaattaaaaatgacgaaattgccaaagaattgtgtcttccacc
agtcaaacttcactg

BLASTn GenBank NR

Probe Info

Probe Sequence(5'-3')	Probe X	Probe Y	Probe Interrogation Position	Strandedness
CAGTTCAGCCGCGAAAACACTCCTG	183	207	27	Antisense
CACTCCTGCACAAGTTTGCGTTGCC	637	195	44	Antisense
GTTGCCAGCGGCAACTTCAGTTGCT	439	439	63	Antisense
CAACTTCAGTTGCTCAGTATCACGA	664	187	74	Antisense
TATCGATCACTACGAGAACCCGCGA	107	655	105	Antisense
GAACCCGCGAAATGTCGGATCACTT	112	345	120	Antisense
GACAAGAACGATCCAAGCGTCGGAA	383	363	145	Antisense
AGCGTCGGAACAGGAATCGTCGGCG	681	77	160	Antisense
GAAATTGCAGATTCGAGTCGACGAT	184	363	207	Antisense
GAATTGTGTCTTCCACCAGTCAAAC	584	323	370	Antisense
GTCTTCCACCAGTCAAACTTCACTG	562	467	377	Antisense

Sequence Source

Affymetrix Proprietary Database

Description	Y45F10D.4 /REP_DB=WormBase Gene ID /WP=CE16643 /TR=O45948 /GB=CAA16379.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster	6grp_highest_10_10 > 84 6grp_high1_10_10 > 58 4grp_highest_8_8 > 14 4grp_high_8_8 > 14 6grp_highest_nonorm > 77 6grp_total > 58 4grp_total > 09 6grp_highest_sub > Cu 6grp_high1_sub > Cu 6grp_total_sub > Cup 4grp_rule_based > L4