ORK01922

Kazusa Clone (Original Type)

Gene/Protein Characteristic Table for ORK01922

Order Kazusa clone(s) from :

Accession No
Product ID	ORK01922
Clone name	ah05954
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	SDC3
cDNA sequence	DNA sequence (5233 bp) Predicted protein sequence (480 aa)
HaloTag ORF Clone	FHC01922
Flexi ORF Clone	FXC01922
Description	Syndecan-3 (SYND3).

Features of the cloned cDNA sequence

Description

Length: 5233 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	3743 bp
Genome contig ID	gi89161185r_31014901
PolyA signal sequence (AATAAA,-20)	+--------+--------+----*----+---- CCATTTATAAGAGGAAATAAAATTAAGCTGAAATG
Flanking genome sequence (100000 - 99951)	----+--------+--------+--------+--------+----* ATGTGCCGTGTCCAGAGTATGAGATAAATATGGTCATTTGGGGAGGGCAG

Features of the protein sequence

Description

Length: 480 aa

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

Entry	Exp	ID%	Protein	Source
O75056	1e-122	100.0	Syndecan-3; Sho...	Homo sapiens
AAK39969	1.9e-122	99.7	syndecan 3 [Hom...	Homo sapiens
XP_001092729	7.9e-118	91.2	similar to Synd...	Macaca mulatta
XP_875616	9.4e-115	93.2	similar to Synd...	Bos taurus
XP_001149044	3.9e-107	99.2	similar to SDC3...	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	IPR001050	66	478	PF01034	Syndecan
HMMSmart	IPR003585	446	464	SM00294	Neurexin/syndecan/glycophorin C
ScanRegExp	IPR001050	447	457	PS00964	Syndecan

Prediction of transmembrane (TM) segments

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	65	ARGLLLPPLLLLLLAGRAAGAQ	86	PRIMARY	22
SOSUI2	2	422	EVLVAVIVGGVVGALFAAFLVTL	444	PRIMARY	23