ORK06737

Kazusa Clone (Original Type)

Gene/Protein Characteristic Table for ORK06737

Order Kazusa clone(s) from :

Accession No	AB208888
Product ID	ORK06737
Clone name	ff08696
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). The 5' end of the cDNA was repaired and ligated with the SalI adapter (5'TCGACCCACGCGTCCG3') and inserted at the SalI site of the vector. The 3'end of the cDNA was inserted at the NotI site of the vector.
Symbol	SCN2A
cDNA sequence	DNA sequence (11847 bp) Predicted protein sequence (1315 aa)
Description	Sodium channel protein type 2 subunit alpha (Sodium channel protein type II subunit alpha) (Voltage-gated sodium channel subunit alpha Nav1.2) (Sodium channel protein, brain II subunit alpha) (HBSC II).

Features of the cloned cDNA sequence

Description

Length: 11847 bp

Physical map

Restriction map

Prediction of protein coding region (GeneMark analysis) for : cloned DNA seq.

Warning for N-terminal truncation: NO

Warning for coding interruption : YES

Integrity of 3' end

Length of 3'UTR	7777 bp
Genome contig ID	gi89161199f_165758810
PolyA signal sequence (AATAAA,-30)	+--------+--------+----*----+---- AAAAGAATAAAGGTTTCGCTTTTGTTTTTGTATTT
Flanking genome sequence (197999 - 198048)	----+--------+--------+--------+--------+----* AATTGTTGTCTTTGTTTCTATCTTTGAAATGCCATTTAAAGGTAGATTTC

Features of the protein sequence

Description

Length: 1315 aa

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

Entry	ID%	Protein	Source
BAD92125	100.0	Sodium channel ...	Homo sapiens
EAX11328	99.3	sodium channel,...	Homo sapiens
Q99250	99.3	Sodium channel ...	Homo sapiens
XP_001153476	99.3	sodium channel,...	Pan troglodytes
AAG53412	99.3	voltage-gated s...	Homo sapiens

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)

[ zoom out (x2) ]

Result of InterProScan

Search method	interpro_ID	From	To	Entry	Definition
HMMPfam	IPR005821	164	431	PF00520	Ion transport
	IPR005821	800	989	PF00520	Ion transport
	IPR010526	1002	1225	PF06512	Sodium ion transport-associated
	IPR005821	1251	1302	PF00520	Ion transport

Prediction of transmembrane (TM) segments

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	137	LFNMLIMCTILTNCVFMTMSNPP	159	SECONDARY	23
	2	229	LRALKTISVIPGLKTIVGALIQS	251	SECONDARY	23
	3	257	DVMILTVFCLSVFALIGLQLFMG	279	PRIMARY	23
	4	410	IFFVLVIFLGSFYLINLILAVVA	432	PRIMARY	23
	5	761	LVVMDPFVDLAITICIVLNTLFM	783	PRIMARY	23
	6	797	VLSVGNLVFTGIFTAEMFLKIIA	819	SECONDARY	23
	7	838	VSLSLMELGLANVEGLSVLRSFR	860	SECONDARY	23
	8	881	IGNSVGALGNLTLVLAIIVFIFA	903	PRIMARY	23
	9	933	HDFFHSFLIVFRVLCGEWIETMW	955	SECONDARY	23
	10	968	TVFMMVMVIGNLVVLNLFLALLL	990	PRIMARY	23
	11	1216	WFETFIVFMILLSSGALAFEDI	1237	PRIMARY	22
	12	1250	EYADKVFTYIFILEMLLKWVAYG	1272	SECONDARY	23
	13	1287	LIVDVSMLHFAALFIGIYVIVLA	1309	PRIMARY	23