KIAA1535

Product ID	ORK05401
Accession No	AB040968
Description	hyperpolarization activated cyclic nucleotide gated potassium channel 3
Clone name	fk12792
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 (3522 bp) Predicted protein sequence (711 aa)
Source	Human fetal brain
Note	We replaced fh09002, former representative clones for KIAA1535 with fk12792. (2005/08/06)

Length: 3522 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	1384 bp
Genome contig ID	gi89161185f_153414193
PolyA signal sequence (TATAAA,-18)	+--------+--------+----*----+---- AAACAGCTGGGTTTAAATATAAAATAGACACACTC
Flanking genome sequence (112071 - 112120)	----+--------+--------+--------+--------+----* ATTTTTGGCTCTTGGTTTGTGTGTGGGAACAACATGAGTGGGAAGGAATT

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

	Chr	f/r	start	end	exon	identity	class
Ensembl gnome browser	1	f	153514193	153526262	8	99.4	Perfect prediction

Length: 711 aa

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

Entry	ID%	Protein	Source
Q9P1Z3	99.9	Potassium/sodiu...	Homo sapiens
AAO49470	99.6	hyperpolarizati...	Homo sapiens
XP_001115891	98.5	hyperpolarizati...	Macaca mulatta
XP_001498862	97.5	similar to hype...	Equus caballus
XP_588153	96.8	similar to Pota...	Bos taurus

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
AB033108	5.8e-05	25.1	KIAA1282

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	IPR003938	25	34	PR01463	EAG/ELK/ERG potassium channel
	IPR003938	67	77	PR01463	EAG/ELK/ERG potassium channel
	IPR003938	78	87	PR01463	EAG/ELK/ERG potassium channel
	IPR003938	197	207	PR01463	EAG/ELK/ERG potassium channel
	IPR003938	279	288	PR01463	EAG/ELK/ERG potassium channel
	IPR003938	443	451	PR01463	EAG/ELK/ERG potassium channel
HMMPfam	IPR013621	1	61	PF08412	Ion transport N-terminal
	IPR005821	65	283	PF00520	Ion transport
	IPR000595	383	468	PF00027	Cyclic nucleotide-binding
HMMSmart	IPR000595	365	478	SM00100	Cyclic nucleotide-binding
ProfileScan	IPR000595	365	471	PS50042	Cyclic nucleotide-binding

Prediction of transmembrane (TM) segments

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	25	PYSDFRFYWDLIMLLLMVGNLIV	47	SECONDARY	23
	2	180	DLASAVVRIFNLIGMMLLLCHWD	202	PRIMARY	23
	3	263	WLTMLSMIVGATCYAMFIGHATA	285	SECONDARY	23

Primer_f	CTTCTGAGTTTGCTGTTGGTG
Primer_r	TGGTCCCACAGTCTTTAATGC
PCR conditions	95 °C30 sec55 °C30 sec72 °C60 sec30 cycles

Panel name	GeneBridge 4
Primer_f	CTTCTGAGTTTGCTGTTGGTG
Primer_r	TGGTCCCACAGTCTTTAATGC
PCR product length	171 bp
PCR conditions	95 °C15 sec62 °C60 sec30 cycles