HUGE

Gene/Protein Characteristic Table for KIAA1840

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

Product ID :	ORK01698
Accession No. :	AB058743
Description :	Spatacsin.
HUGO Gene Name :
Clone Name :	pf01011 [Vector Info]
Flexi ORF Clone :	pF1KA1840
Source :	Human brain (hippocampus)
Note :	We replaced fj19761, former representative clones for KIAA1840 with pf01011. (2002/5/10)

Features of the cloned DNA sequence	Description

Length: 7752 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 419 bp

Genome contig ID gi51511731r_42542192
PolyA signal sequence
(AATAAA,-16)
+----*----+----*----+----*----+----
TAGAAACTGATCTTTCTGTAATAAAATAGATTTTC
Flanking genome sequence
(100000 - 99951)
----+----*----+----*----+----*----+----*----+----*
AATTCAGTGTATGTCATTATTACTGCTAAGGAAATCTTAGCCCTTGTCTG

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

Chr f/r start end exon identity class

ContigView(URL based/DAS) 15 r 42642192 42743138 40 99.9 Perfect prediction

Features of the protein sequence	Description

Length: 2443 aa

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

Entry	ID%	Protein	Source
NP_079413	100.0	spastic paraple...	Homo sapiens
XP_001918246	87.5	similar to Spat...	Equus caballus
XP_544657	85.3	similar to CG13...	Canis lupus fam...
XP_869859	83.1	spastic paraple...	Bos taurus
CAM21781	76.4	spastic paraple...	Mus musculus

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

ScanRegExp IPR001360 482 490 PS00572 Glycoside hydrolase

Search method	interpro_ID	From	To	Entry	Definition
ScanRegExp	IPR001360	482	490	PS00572	Glycoside hydrolase

Prediction of transmembrane (TM) segments

Method No. N terminal transmembrane region C terminal type length

SOSUI2 1 19 TAAMGRVLPMLLVPVPAEAMGQL 41 SECONDARY 23

2 172 VILHIIFPERDAAIRVLNCFTLP 194 SECONDARY 23

3 208 LCRGILFVLSSLGWIYIFDVVDG 230 PRIMARY 23

4 1471 SVLASCLQGASAISCLCVWIITS 1493 PRIMARY 23

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	19	TAAMGRVLPMLLVPVPAEAMGQL	41	SECONDARY	23
2	172	VILHIIFPERDAAIRVLNCFTLP	194	SECONDARY	23
3	208	LCRGILFVLSSLGWIYIFDVVDG	230	PRIMARY	23
4	1471	SVLASCLQGASAISCLCVWIITS	1493	PRIMARY	23

Expression profile	Description

: RT-PCR-ELISA Description
: Experimental conditions

Primer_f
: ACATGCTCACAGATAACCACC

Primer_r
: GTTTGATGTAGTCCAGCAGGG

PCR conditions
: 95 °C30 sec55 °C30 sec72 °C60 sec30 cycles

RT-PCR-ELISA	Description

RH mapping information	Description

Chromosome No.

: 15

Experimental conditions

Panel name	: genbank
Primer_f	: -
Primer_r	: -
PCR product length	: -
PCR conditions	: -

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

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

Length of 3'UTR	419 bp
Genome contig ID	gi51511731r_42542192
PolyA signal sequence (AATAAA,-16)	+--------+--------+----*----+---- TAGAAACTGATCTTTCTGTAATAAAATAGATTTTC
Flanking genome sequence (100000 - 99951)	----+--------+--------+--------+--------+----* AATTCAGTGTATGTCATTATTACTGCTAAGGAAATCTTAGCCCTTGTCTG

	Chr	f/r	start	end	exon	identity	class
ContigView(URL based/DAS)	15	r	42642192	42743138	40	99.9	Perfect prediction

Primer_f	: ACATGCTCACAGATAACCACC
Primer_r	: GTTTGATGTAGTCCAGCAGGG
PCR conditions	: 95 °C30 sec55 °C30 sec72 °C60 sec30 cycles

Gene/Protein Characteristic Table for KIAA1840

Features of the cloned DNA sequence

Features of the protein sequence

Expression profile

RH mapping information