KIAA1840

Product ID	ORK01698
Accession No	AB058743
Description	spastic paraplegia 11 (autosomal recessive), transcript variant 1
Clone name	pf01011
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, AmpR). The 5' end of the cDNA was repaired and ligated with the SalI adapter (5'TCGACCCACG CGTCCG3') and inserted at the SalI site of the vector. The 3'end of the cDNA was inserted at the NotI site of the vector.
cDNA sequence	DNA sequence (7752 bp) Predicted protein sequence (2443 aa)
HaloTag ORF Clone	FHC01698
Flexi ORF Clone	FXC01698
Source	Human brain (hippocampus)
Rouge ID	mKIAA1840 by Kazusa Mouse cDNA Project
Note	We replaced fj19761, former representative clones for KIAA1840 with pf01011. (2002/5/10)

Length: 7752 bp

Physical map

Restriction map

Prediction of protein coding region (GeneMark analysis).

	N-terminal truncation	Coding interruption
cloned DNA seq	Warning	No warning

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
Ensembl gnome browser	15	r	42642192	42743138	40	99.9	Perfect prediction

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 HUGE database (FASTA output, Multiple alignment)

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

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

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

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