HUGE

Gene/Protein Characteristic Table for KIAA0468

Link to : Rouge \| GTOP \| SWISS-PROT/TrEMBL \| GeneCards\| RefDIC
Features : DNA sequence \| Protein sequence \| Mapping

Product ID :	ORK06744
Accession No. :	AB007937
Description :	Syndecan-3.
HUGO Gene Name :
Clone Name :	hg01596 [Vector Info]
Source :	Human adult brain

Features of the cloned DNA sequence	Description

Length: 6400 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 3742 bp

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

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

Chr f/r start end exon identity class

ContigView(URL based/DAS) 1 r 31114901 31124176 3 99.0 Terminal No-hit

Features of the protein sequence	Description

Length: 410 aa

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

Entry	Exp	ID%	Protein	Source
CAI22245	1.5e-108	100.0	syndecan 3 [Hom...	Homo sapiens
O75056	1.1e-99	89.3	Syndecan-3; Sho...	Homo sapiens
AAK39969	2.2e-99	89.1	syndecan 3 [Hom...	Homo sapiens
XP_001149044	2.8e-98	99.2	similar to SDC3...	Pan troglodytes
EAX07637	8.5e-97	100.0	syndecan 3 (N-s...	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 homology search against other HUGE database (FASTA output)
No significant homologues
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 19 408 PF01034 Syndecan

HMMSmart IPR003585 376 394 SM00294 Neurexin/syndecan/glycophorin C

ScanRegExp IPR001050 377 387 PS00964 Syndecan

Search method	interpro_ID	From	To	Entry	Definition
HMMPfam	IPR001050	19	408	PF01034	Syndecan
HMMSmart	IPR003585	376	394	SM00294	Neurexin/syndecan/glycophorin C
ScanRegExp	IPR001050	377	387	PS00964	Syndecan

Prediction of transmembrane (TM) segments

Method No. N terminal transmembrane region C terminal type length

SOSUI2 1 19 RGLGDLILMAIAYLGSSCP 37 SECONDARY 19

2 352 EVLVAVIVGGVVGALFAAFLVTL 374 PRIMARY 23

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	19	RGLGDLILMAIAYLGSSCP	37	SECONDARY	19
2	352	EVLVAVIVGGVVGALFAAFLVTL	374	PRIMARY	23

RH mapping information	Description

Chromosome No.

: 1

Experimental conditions

Panel name	: GeneBridge 4
Primer_f	: GGGCTCTGGGGATGATGACTC
Primer_r	: CCCGTGGGCTTCTCAGAGTTG
PCR product length	: 149 bp
PCR conditions	: 95 °C15 sec68 °C60 sec30 cycles

How to obtain KIAA clone(s) Back to the HUGE Protein Database homepage

	cloned DNA seq.
Warning for N-terminal truncation:	NO
Warning for coding interruption:	YES

Length of 3'UTR	3742 bp
Genome contig ID	gi89161185r_31014901
PolyA signal sequence (AATAAA,-20)	+--------+--------+----*----+---- CCATTTATAAGAGGAAATAAAATTAAGCTGAAATG
Flanking genome sequence (100000 - 99951)	----+--------+--------+--------+--------+----* ATGTGCCGTGTCCAGAGTATGAGATAAATATGGTCATTTGGGGAGGGCAG

	Chr	f/r	start	end	exon	identity	class
ContigView(URL based/DAS)	1	r	31114901	31124176	3	99.0	Terminal No-hit

Gene/Protein Characteristic Table for KIAA0468

Features of the cloned DNA sequence

Features of the protein sequence

RH mapping information