KIAA1356

Product ID	ORK06738
Accession No	AB037777
Description	sodium channel, voltage gated, type III alpha subunit
Clone name	fj01605
Vector information	The cDNA fragment was inserted at the SalI-NotI site of the ... The cDNA fragment was inserted at the SalI-NotI site of the pBluescript II SK(+) vector (GenBank Accession No. X52328, AmpR). The 5' end of the cDNA was repaired and ligated with the SalI adapter (5'TCGACCCACG CGTCCG3') and inserted at the SalI site of the vector. The 3'end of the cDNA was inserted at the NotI site of the vector.
cDNA sequence	DNA sequence (4183 bp) Predicted protein sequence (519 aa)
Source	Human fetal brain

Length: 4183 bp

Physical map

Restriction map

Prediction of protein coding region (GeneMark analysis).

	N-terminal truncation	Coding interruption
cloned DNA seq	Warning	No warning

Integrity of 3' end

Length of 3'UTR	2623 bp
Genome contig ID	gi89161199r_165552284
PolyA signal sequence (AATAAA,-21)	+--------+--------+----*----+---- CATAATTCTCCCATAATAAATTATATAAGGTGGCT
Flanking genome sequence (100000 - 99951)	----+--------+--------+--------+--------+----* AATTGGAATTCATTGGCTTCTTTCTGCTCAAGTCAATTTACACATCTACA

Ensembl ContigView (Add our DAS server as a DAS source)

	Chr	f/r	start	end	exon	identity	class
Ensembl gnome browser	2	r	165652284	165659222	3	99.1	Perfect prediction

Length: 519 aa

Result of homology search against nr database (FASTA output, Multiple alignment)

Entry	Exp	ID%	Protein	Source
EAX11332	2.6e-203	100.0	sodium channel,...	Homo sapiens
XP_001152236	3.4e-203	100.0	similar to rat ...	Pan troglodytes
XP_001152176	3.4e-203	100.0	sodium channel,...	Pan troglodytes
EAX11335	3.5e-203	100.0	sodium channel,...	Homo sapiens
XP_001152817	3.6e-203	100.0	sodium channel,...	Pan troglodytes

The numbers on the left and right sides of a black line in the graphical overview indicate the lengths (in amino acid residues) of the non-homologous N-terminal and C-terminal portions flanking the homologous region (indicated by the black line), respectively.

Result of homology search against HUGE database (FASTA output, Multiple alignment)

Entry	Exp	ID%	HUGE_ID
AB032946	1.5e-24	31.9	KIAA1120
AB032949	2.7e-24	30.6	KIAA1123
AB032995	2.4e-08	25.3	KIAA1169

The numbers on the left and right sides of a black line in the graphical overview indicate the lengths (in amino acid residues) of the non-homologous N-terminal and C-terminal portions flanking the homologous region (indicated by the black line), respectively.

Result of motif / domain search (InterProScan and SOSUI)

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Result of InterProScan

Search method	interpro_ID	From	To	Entry	Definition
FPrintScan	IPR001696	272	291	PR00170	Na+ channel
FPrintScan	IPR001696	307	320	PR00170	Na+ channel
HMMPfam	IPR005821	79	289	PF00520	Ion transport
HMMPfam	IPR000048	420	440	PF00612	IQ calmodulin-binding region
ProfileScan	IPR000048	419	448	PS50096	IQ calmodulin-binding region

Prediction of transmembrane (TM) segments

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	46	VFDISIMILICLNMVTMMVETD	67	SECONDARY	22
	2	74	TLVLSRINLVFIVLFTGEFVLKL	96	PRIMARY	23
	3	105	TIGWNIFDFVVVILSIVGMFLAE	127	PRIMARY	23
	4	140	RVIRLARIGRILRLIKGAKGIRT	162	SECONDARY	23
	5	167	LMMSLPALFNIGLLLFLVMFIYA	189	PRIMARY	23
	6	268	FFFVSYIIISFLVVVNMYIAVIL	290	PRIMARY	23

Primer_f	CATTTCACTTATTGGCCTCTG
Primer_r	GTACTGCTTGGTGAATCATGC
PCR conditions	95 °C30 sec55 °C30 sec72 °C60 sec30 cycles

Panel name	GeneBridge 4
Primer_f	CATTTCACTTATTGGCCTCTG
Primer_r	GTACTGCTTGGTGAATCATGC
PCR product length	161 bp
PCR conditions	95 °C15 sec62 °C60 sec30 cycles