ORK06178

Kazusa Clone (Original Type)

Gene/Protein Characteristic Table for ORK06178

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Accession No	AB209048
Product ID	ORK06178
Clone name	hj00278
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 hj00278 has an irregular adapter sequence (GTCGACCCAC GCGTCCGCGG ACGCGTGGG) instead of regular one (GTCGACCCAC GCGTCCG).
Symbol	NPC1
cDNA sequence	DNA sequence (4573 bp) Predicted protein sequence (1289 aa)
Description	Niemann-Pick C1 protein precursor.

Features of the cloned cDNA sequence

Description

Length: 4573 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	701 bp
Genome contig ID	gi51511735r_19265463
PolyA signal sequence (AATAAA,-21)	+--------+--------+----*----+---- ACTTATTTTTCTTTAATAAAATACATTGTTTTCCT
Flanking genome sequence (100000 - 99951)	----+--------+--------+--------+--------+----* AAGTTTTGGGGTTACCCTATCTGCTTTGAGAGACAAATACAAAAGCTAAA

Features of the protein sequence

Description

Length: 1289 aa

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

Entry	ID%	Protein	Source
BAD92285	100.0	Niemann-Pick di...	Homo sapiens
O15118	99.9	Niemann-Pick C1...	Homo sapiens
AAK25791	99.8	Niemann-Pick di...	Homo sapiens
AAH63302	99.7	Niemann-Pick di...	Homo sapiens
XP_001155285	98.8	Niemann-Pick di...	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
HMMPfam	IPR003392	374	1264	PF02460	Patched
HMMTigr	IPR004765	36	1263	TIGR00917	Niemann-Pick C type protein
ProfileScan	IPR000731	631	796	PS50156	Sterol-sensing 5TM box

Prediction of transmembrane (TM) segments

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	11	SMTARGLALGLLLLLLCPAQVFS	33	PRIMARY	23
	2	275	GLDAMYVIMWITYMAFLLVFFGA	297	PRIMARY	23
	3	361	PGCVIFFSLVFITACSSGLVFVR	383	PRIMARY	23
	4	540	LHDPCLGTFGGPVFPWLVLGG	560	SECONDARY	21
	5	633	FTVVISYAIMFLYISLALGHMKS	655	SECONDARY	23
	6	663	SKVSLGIAGILIVLSSVACSLGV	685	PRIMARY	23
	7	695	LIVIEVIPFLVLAVGVDNIFILV	717	PRIMARY	23
	8	775	AGLAVFIDFLLQITCFVSLLGL	796	PRIMARY	22
	9	1105	IIDDTIFNLGVSLGAIFLVTMVL	1127	PRIMARY	23
	10	1132	LWSAVIMCATIAMVLVNMFGVMW	1154	PRIMARY	23
	11	1159	SLNAVSLVNLVMSCGISVEFCSH	1181	SECONDARY	23
	12	1203	AHMGSSVFSGITLTKFGGIVVLA	1225	SECONDARY	23
	13	1238	RMYLAMVLLGATHGLIFLPVLLS	1260	PRIMARY	23