KIAA1879

Product ID	ORK05726
Accession No	AB067466
Description	polycystic kidney disease 1-like 2 (gene/pseudogene)
Clone name	ah00647
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 (5834 bp) Predicted protein sequence (995 aa)
Source	Human brain (amygdala)

Length: 5834 bp

Physical map

Restriction map

Prediction of protein coding region (GeneMark analysis).

	N-terminal truncation	Coding interruption
cloned DNA seq	Warning	Warning

Integrity of 3' end

Length of 3'UTR	367 bp
Genome contig ID	gi51511732r_79621468
PolyA signal sequence (None)	+--------+--------+----*----+---- ACTCCAGCCTGGGAGACAGAGCAAGACTCTGTCTT
Flanking genome sequence (99719 - 99670)	----+--------+--------+--------+--------+----* AAAAAAAAAAAAAAAAAAAAAGAGGCCAGGTGCAGTGGCTTACGCCTATA

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

	Chr	f/r	start	end	exon	identity	class
Ensembl gnome browser	16	r	79721187	79781786	26	99.4	Perfect prediction

Length: 995 aa

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

Entry	ID%	Protein	Source
AAQ73173	97.9	polycystic kidn...	Homo sapiens
AAO32796	97.7	polycystic kidn...	Homo sapiens
Q7Z442	97.7	Polycystic kidn...	Homo sapiens
NP_443124	97.7	polycystin 1-li...	Homo sapiens
XP_001916475	83.0	similar to poly...	Equus caballus

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
FPrintScan	IPR000434	530	552	PR00500	Polycystic kidney disease type 1 protein
	IPR000434	571	595	PR00500	Polycystic kidney disease type 1 protein
	IPR000434	925	944	PR00500	Polycystic kidney disease type 1 protein
HMMPfam	IPR000203	256	300	PF01825	GPS
HMMPfam	IPR001024	368	484	PF01477	Lipoxygenase
HMMSmart	IPR000203	256	305	SM00303	GPS
HMMSmart	IPR001024	368	487	SM00308	Lipoxygenase
ProfileScan	IPR014010	1	101	PS51111	Egg jelly receptor
	IPR000203	257	306	PS50221	GPS
	IPR001024	368	485	PS50095	Lipoxygenase

Prediction of transmembrane (TM) segments

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	322	NPVVVTTVGCLCVVYVLVVIWA	343	PRIMARY	22
	2	531	VSCCFSLLLCTMLTSIMFWGVPK	553	PRIMARY	23
	3	574	IGLESSILMFPINLLIVQIFQNT	596	SECONDARY	23
	4	798	WCILVGWLLVAATSGVAAFFTML	820	PRIMARY	23
	5	837	MAVSFVESVFVTQPLKVLGFAAF	859	SECONDARY	23
	6	922	AFALIREILAYLGFLWMLLLVA	943	PRIMARY	22

Primer_f	AAATCCCCACAGCTCTGCAAG
Primer_r	GCACATGCTCTCTGACCTTCT
PCR conditions	95 °C30 sec55 °C30 sec72 °C60 sec30 cycles

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