HUGE

Gene/Protein Characteristic Table for KIAA0348

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

Product ID :
Accession No. :	AB002346
Description :	Synaptojanin-2.
HUGO Gene Name :
Clone Name :	hg01551 [Vector Info]
Flexi ORF Clone :	pF1KA0348
Source :	Human adult brain

Features of the cloned DNA sequence	Description

Length: 6562 bp
Physical map
Restriction map
The cloned DNA sequence was revised by direct RT-PCR/sequencing experiments following the alert of coding interruption by GeneMark analysis.
Comparison between the cloned and the revised DNA sequences.
Prediction of protein coding region (GeneMark analysis) for :
cloned DNA seq. revised DNA seq.
Warning for N-terminal truncation:
YES YES

Warning for coding interruption:
YES NO

Integrity of 3' end

Length of 3'UTR 2172 bp

Genome contig ID gi89161210f_158258255
PolyA signal sequence
(None)
+----*----+----*----+----*----+----
GGTAGTAGGTATGGTTCTCATACCAGAATTCTCTT
Flanking genome sequence
(181303 - 181352)
----+----*----+----*----+----*----+----*----+----*
AAAAAAAAAAAAAAGGACAATTGGAATTGCCTTATTTATTTTTAAAATCA

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

Chr f/r start end exon identity class

ContigView(URL based/DAS) 6 f 158358255 158439556 26 100.0 Perfect prediction

Features of the protein sequence	Description

Length: 1443 aa
This protein sequence is predicted from the revised DNA sequence

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

Entry	ID%	Protein	Source
O15056	100.0	Synaptojanin-2;...	Homo sapiens
AAN73051	100.0	synaptojanin 2A...	Homo sapiens
XP_001381377	80.9	similar to syna...	Monodelphis dom...
XP_001492268	85.9	synaptojanin 2 ...	Equus caballus
NP_001106824	83.8	synaptojanin 2 ...	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, Multiple alignment)

Entry	Exp	ID%	HUGE_ID
AB020717	1.4e-83	47.5	KIAA0910
AB020658	2.9e-10	30.7	KIAA0851
AB023183	9.9e-10	32.1	KIAA0966

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 motif / domain search (InterProScan and SOSUI)

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Result of InterProScan

Search method interpro_ID From To Entry Definition

HMMPfam IPR002013 7 296 PF02383 Synaptojanin

IPR005135 479 809 PF03372 Endonuclease/exonuclease/phosphatase

IPR015047 810 955 PF08952 Domain of unknown function DUF1866

HMMSmart IPR000300 475 817 SM00128 Inositol polyphosphate related phosphatase

ProfileScan IPR002013 67 391 PS50275 Synaptojanin

IPR000504 836 915 PS50102 RNA recognition motif

Search method	interpro_ID	From	To	Entry	Definition
HMMPfam	IPR002013	7	296	PF02383	Synaptojanin
IPR005135	479	809	PF03372	Endonuclease/exonuclease/phosphatase
IPR015047	810	955	PF08952	Domain of unknown function DUF1866
HMMSmart	IPR000300	475	817	SM00128	Inositol polyphosphate related phosphatase
ProfileScan	IPR002013	67	391	PS50275	Synaptojanin
IPR000504	836	915	PS50102	RNA recognition motif

Prediction of transmembrane (TM) segments

Method No. N terminal transmembrane region C terminal type length

SOSUI2 1 17 KSGGTSLSFLVLVTGCTSVGRIP 39 SECONDARY 23

2 567 RYILLTSAQLVGVCLYIFVRPYH 589 PRIMARY 23

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	17	KSGGTSLSFLVLVTGCTSVGRIP	39	SECONDARY	23
2	567	RYILLTSAQLVGVCLYIFVRPYH	589	PRIMARY	23

Expression profile	Description

: RT-PCR Description

Experimental conditions

Primer_f
: CCTACTACCAACTCCAAATCC

Primer_r
: TAGGTTTTCTCTTCGTTCCAG

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

RT-PCR	Description

RH mapping information	Description

Chromosome No.

: 6

Experimental conditions

Panel name	: GeneBridge 4
Primer_f	: CCTACTACCAACTCCAAATCC
Primer_r	: TAGGTTTTCTCTTCGTTCCAG
PCR product length	: 243 bp
PCR conditions	: 95 °C15 sec62 °C60 sec30 cycles

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

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

Length of 3'UTR	2172 bp
Genome contig ID	gi89161210f_158258255
PolyA signal sequence (None)	+--------+--------+----*----+---- GGTAGTAGGTATGGTTCTCATACCAGAATTCTCTT
Flanking genome sequence (181303 - 181352)	----+--------+--------+--------+--------+----* AAAAAAAAAAAAAAGGACAATTGGAATTGCCTTATTTATTTTTAAAATCA

	Chr	f/r	start	end	exon	identity	class
ContigView(URL based/DAS)	6	f	158358255	158439556	26	100.0	Perfect prediction

Gene/Protein Characteristic Table for KIAA0348

Features of the cloned DNA sequence

Features of the protein sequence

Expression profile

RH mapping information