ORK04413

Kazusa Clone (Original Type)

Gene/Protein Characteristic Table for ORK04413

Order Kazusa clone(s) from :

Accession No	AB209467
Product ID	ORK04413
Clone name	ah04519
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. This cDNA clone ah04519 has an irregular adapter sequence (GTCGACCCAC GCGTCCGCCC ACGCGTCCG) instead of regular one (GTCGACCCAC GCGTCCG).
Symbol	CACNA1B
cDNA sequence	DNA sequence (5647 bp) Predicted protein sequence (1370 aa)
Description	Voltage-dependent N-type calcium channel subunit alpha-1B (Voltage- gated calcium channel subunit alpha Cav2.2) (Calcium channel, L type, alpha-1 polypeptide isoform 5) (Brain calcium channel III) (BIII).

Features of the cloned cDNA sequence

Description

Length: 5647 bp

Physical map

Restriction map

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

Warning for N-terminal truncation: YES

Warning for coding interruption : NO

Integrity of 3' end

Length of 3'UTR	1532 bp
Genome contig ID	gi89161216f_139937928
PolyA signal sequence (AATAAA,-28)	+--------+--------+----*----+---- GAATTAAAATAAAAACTTAGCAAAAAATCAAAAAC
Flanking genome sequence (200962 - 201011)	----+--------+--------+--------+--------+----* AAAACCCCACCATGCTGCCATTGGTATATGCAAGGGTGTGGGCCTGGGGT

Features of the protein sequence

Description

Length: 1370 aa

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

Entry	ID%	Protein	Source
BAD92704	100.0	calcium channel...	Homo sapiens
CAI17142	99.7	calcium channel...	Homo sapiens
CAI17143	99.7	calcium channel...	Homo sapiens
Q00975	99.5	Voltage-depende...	Homo sapiens
XP_520396	99.1	calcium 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 motif / domain search (InterProScan and SOSUI)

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Result of InterProScan

Search method	interpro_ID	From	To	Entry	Definition
FPrintScan	IPR005447	73	88	PR01631	N-type voltage-dependent calcium channel alpha 1 subunit
	IPR005447	105	121	PR01631	N-type voltage-dependent calcium channel alpha 1 subunit
	IPR005447	1083	1102	PR01631	N-type voltage-dependent calcium channel alpha 1 subunit
HMMPfam	IPR005821	214	448	PF00520	Ion transport
HMMPfam	IPR005821	538	738	PF00520	Ion transport
ProfileScan	IPR002048	755	790	PS50222	Calcium-binding EF-hand

Prediction of transmembrane (TM) segments

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	180	YFEVVILVVIALSSIALAAEDPV	202	PRIMARY	23
	2	216	DYIFTGVFTFEMVIKMIDLGLLL	238	SECONDARY	23
	3	249	NILDFIVVSGALVAFAFSSFVGG	271	PRIMARY	23
	4	317	NILIVYMLFMFIFAVIAVQLFK	338	PRIMARY	22
	5	383	NVLWALLTLFTVSTGEGWPMVLK	405	SECONDARY	23
	6	427	IFYVVYFVVFPFFFVNIFVALII	449	PRIMARY	23
	7	504	PPFEYFIMAMIALNTVVLMMKFY	526	PRIMARY	23
	8	537	KCLNIVFTSMFSMECVLKIIAFG	559	PRIMARY	23
	9	567	AWNVFDFVTVLGSITDILVTEIA	589	SECONDARY	23
	10	603	AARLIKLLRQGYTIRILLWTFVQ	625	SECONDARY	23
	11	634	CLLIAMLFFIYAIIGMQVFGNIA	656	PRIMARY	23
	12	720	VSFIFLCSFLMLNLFVAVIMDNF	742	PRIMARY	23