KIAA0254

Product ID	ORK01968
Accession No	D87443
Description	sorting nexin 19, transcript variant 1
Clone name	ha07011
Vector information	The cDNA fragment was inserted at the EcoRV-NotI site of the ... The cDNA fragment was inserted at the EcoRV-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 EcoRV (blunt-end ligation) site without using any linker or adapter. The 3' end of the cDNA was inserted at the NotI site of the vector.
cDNA sequence	DNA sequence (6049 bp) Predicted protein sequence (1009 aa)
HaloTag ORF Clone	FHC01968
Flexi ORF Clone	FXC01968
Source	Myeloblast cell line (KG-1)
Rouge ID	mKIAA0254 by Kazusa Mouse cDNA Project

Length: 6049 bp

Physical map

Restriction map

Prediction of protein coding region (GeneMark analysis).

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

Integrity of 3' end

Length of 3'UTR	2542 bp
Genome contig ID	gi51511727r_130150985
PolyA signal sequence (AATAAA,-18)	+--------+--------+----*----+---- ATAAAACCTAAATGGAAAATAAATTCCTAAATCTG
Flanking genome sequence (100000 - 99951)	----+--------+--------+--------+--------+----* AGCCTAGGAGCATGTATAAATTTTATTTTTATTATTATTATACATTAAGT

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

	Chr	f/r	start	end	exon	identity	class
Ensembl gnome browser	11	r	130250985	130291572	11	99.1	Perfect prediction

Length: 1009 aa

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

Entry	ID%	Protein	Source
Q92543	100.0	Sorting nexin-19.	Homo sapiens
BAF85146	99.9	unnamed protein...	Homo sapiens
EAW67794	99.8	sorting nexin 1...	Homo sapiens
NP_055573	99.7	sorting nexin 1...	Homo sapiens
XP_508865	98.7	sorting nexin 1...	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 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
HMMPfam	IPR003114	112	289	PF02194	PX-associated
	IPR001683	544	676	PF00787	Phox-like
	IPR013937	855	964	PF08628	Sorting nexin
HMMSmart	IPR013996	112	289	SM00313	PX-associated
HMMSmart	IPR001683	544	676	SM00312	Phox-like
ProfileScan	IPR003114	112	289	PS51207	PX-associated
ProfileScan	IPR001683	550	680	PS50195	Phox-like

Prediction of transmembrane (TM) segments

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	46	LMAVGVLLGWLLVIHLLVNVWLL	68	PRIMARY	23
SOSUI2	2	73	ALLVVLGGWLGSSLAGVASGRLH	95	PRIMARY	23

Primer_f
Primer_r
PCR conditions	test

Panel name	Genebridge 4
Primer_f	GAATTGGGCCTGTGCTGATCC
Primer_r	ACAGAAAGAACACAGCATCCC
PCR product length	172 bp
PCR conditions	95 °C15 sec64 °C60 sec30 cycles