ORK04005

Kazusa Clone (Original Type)

Gene/Protein Characteristic Table for ORK04005

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Accession No	AB208839
Product ID	ORK04005
Clone name	fh14412
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	ABCA1
cDNA sequence	DNA sequence (5817 bp) Predicted protein sequence (403 aa)
Description	ATP-binding cassette sub-family A member 1 (ATP-binding cassette transporter 1) (ATP-binding cassette 1) (ABC-1) (Cholesterol efflux regulatory protein).

Features of the cloned cDNA sequence

Description

Length: 5817 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 : YES

Integrity of 3' end

Length of 3'UTR	4603 bp
Genome contig ID	gi89161216r_106484425
PolyA signal sequence (None)	+--------+--------+----*----+---- TTTAAATTTACAGAATATTATATAACCCACTGCTG
Flanking genome sequence (100000 - 99951)	----+--------+--------+--------+--------+----* AAAAAGAAAAAAATGATTGTTTTAGAAGTTAAAGTCAATATTGATTTTAA

Features of the protein sequence

Description

Length: 403 aa

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

Entry	Exp	ID%	Protein	Source
BAD92076	5.5e-149	100.0	ATP-binding cas...	Homo sapiens
EAW58994	2.6e-141	100.0	ATP-binding cas...	Homo sapiens
AAK43526	2.6e-141	100.0	ATP-binding cas...	Homo sapiens
AAI46857	2.6e-141	100.0	ATP-binding cas...	Homo sapiens
O95477	2.6e-141	100.0	ATP-binding cas...	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)

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Result of InterProScan

Search method	interpro_ID	From	To	Entry	Definition
BlastProDom	IPR003439	362	386	PD000006	ABC transporter related
HMMPfam	IPR003439	257	386	PF00005	ABC transporter related

Prediction of transmembrane (TM) segments

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	36	IIIFICFQQKSYVSSTNLPVLAL	58	PRIMARY	23
	2	82	STAYVVLTSVNLFIGINGSVATF	104	SECONDARY	23
	3	118	NDILKSVFLIFPHFCLGRGLIDM	140	SECONDARY	23
	4	170	NLFAMAVEGVVFFLITVLIQYR	191	PRIMARY	22