AceView: Gene:XKR4, a comprehensive annotation of human, mouse and worm genes with mRNAs or ESTsAceView.

Expression: According to AceView, this gene is moderately expressed, only 21.3% of the average gene in this release. The sequence of this gene is defined by 31 GenBank accessions from 23 cDNA clones, some from whole brain (seen 6 times), brain (3), eye (2), frontal lobe (once), neuroblastoma (once), peripheral nervous system, sympathetictrunk (once), pooled brain, lung, testis (once) and 5 other tissues. We annotate structural defects or features in 4 cDNA clones.
Alternative mRNA variants and regulation: The gene contains 3 distinct gt-ag introns. Transcription produces 2 alternatively spliced mRNAs. There are 2 non overlapping alternative last exons (see the diagram). The mRNAs appear to differ by truncation of the 3' end.
Function: There are 3 articles specifically referring to this gene in PubMed. Proteins are expected to localize in various compartments (plasma membrane, integral to membrane). No phenotype has yet been reported to our knowledge: this gene's in vivo function is yet unknown.
Protein coding potential: The 2 spliced mRNAs putatively encode good proteins, altogether 2 different isoforms (1 complete, 1 COOH complete), containing XK-related protein domain [Pfam], some transmembrane domains [Psort2]. Finally proteins from this gene may be modulated by phosphorylation, as detailed at PhosphoSite.

Please quote: AceView: a comprehensive cDNA-supported gene and transcripts annotation, Genome Biology 2006, 7(Suppl 1):S12

Alternative mRNAs are shown aligned from 5' to 3' on a virtual genome where introns have been shrunk to a minimal length. Exon size is proportional to length, intron height reflects the number of cDNAs supporting each intron, the small numbers show the support of the introns in deep sequencing (with details in mouse-over) . Introns of the same color are identical, of different colors are different. 'Good proteins' are pink, partial or not-good proteins are yellow, uORFs are green. 5' cap or3' poly A flags show completeness of the transcript.
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cDNA accession Links to the sequence	Tissue most 5' clones in red	Match mRNA	From bp to bp in mRNA	From bp to bp in accs.	Clone encodes complete protein (with AA variation)	Features	Anomalies detected by AceView	Accession match over (% length)	Base differences relative to genome (% identity)
BC106028	Peripheral Nervous System, sympathetictrunk	.a	1 to 842	1 to 842		tiling clone,		842/1578 (53 %)	1 diff (100.0 %id)
AY534241		.a	4 to 3910	1 to 3907	exact	tiling clone, AAA	Possibly primed on the genome, locally A rich (17/19 A in genome downstream of last aligned base)	3907/3907 (100 %)	0 diff (100 %id)
BQ881619	sympathetic trunk	.a	4 to 730	1 to 736				736/890 (82 %)	29 diff (96.8 %id)
NM_052898.1		.a	4 to 3910	1 to 3907	exact	RefSeq, AAA	Possibly primed on the genome, locally A rich (17/19 A in genome downstream of last aligned base)	3907/3907 (100 %)	0 diff (100 %id)
AB067476	brain	.a	470 to 3910	1 to 3441		available from KIAA,		3441/3441 (100 %)	0 diff (100 %id)
DA708570		.a	517 to 1043	2 to 528		capped		527/534 (98 %)	2 diff (99.7 %id)
AU252430	neuroblastoma	.a	1520 to 2194	23 to 700				678/700 (96 %)	5 diff (99.3 %id)
BX952967		.a	1863 to 2340	1 to 478				478/478 (100 %)	0 diff (100 %id)
BI820247	pooled brain, lung, testis	.a	1938 to 2763	1 to 824				824/840 (98 %)	16 diff (98.1 %id)
TI_57199661		.a	1939 to 2763	56 to 878				823/894 (92 %)	16 diff (98.3 %id)
AI879399. matches multiple genes	brain, frontal lobe	.a	2051 to 2480	430 to 1			also hits gene MRPS31	430/430 (100 %)	3 diff (99.4 %id)
D60471	brain	.a	2166 to 2600	1 to 436				436/436 (100 %)	4 diff (99.1 %id)
D60966		.a	2166 to 2447	1 to 283				283/284 (99 %)	6 diff (97.9 %id)
D61083		.a	2166 to 2523	1 to 358				358/358 (100 %)	5 diff (98.7 %id)
D61255		.a	2166 to 2533	1 to 367				367/367 (100 %)	7 diff (98.1 %id)
BM449480	eye, retinoblastoma	.a	2497 to 3190	1 to 697				697/1032 (67 %)	33 diff (96.9 %id)
T79882	whole brain	.a	2868 to 3241	1 to 373				373/555 (67 %)	8 diff (98.6 %id)
CA390886	eye, RPE/choroid	.a	2878 to 3563	1 to 686				686/686 (100 %)	0 diff (100 %id)
R17904	whole brain	.a	2903 to 3239	35 to 378			Possibly primed on the genome, locally A rich (17/19 A in genome downstream of last aligned base)	344/379 (90 %)	18 diff (95.3 %id)
R54211	whole brain	.a	2903 to 3279	33 to 416				384/417 (92 %)	8 diff (98.1 %id)
R15224	whole brain	.a	2907 to 3272	1 to 372				372/378 (98 %)	14 diff (96.3 %id)
AU252431	neuroblastoma	.a	3232 to 3927	699 to 2				698/700 (99 %)	0 diff (100 %id)
DB324035		.a	3345 to 3910	566 to 1				566/566 (100 %)	0 diff (100 %id)
R54212	whole brain	.a	3393 to 3915	528 to 1				528/528 (100 %)	19 diff (96.5 %id)
BX105819	whole brain	.a	3417 to 3910	512 to 15		AAA	Possibly primed on the genome, locally A rich (17/19 A in genome downstream of last aligned base)	498/499 (99 %)	4 diff (99.2 %id)
R37600	whole brain	.a	3477 to 3919	448 to 1				448/450 (99 %)	6 diff (98.7 %id)
D80844	brain	.a	3503 to 3910	411 to 1				411/411 (100 %)	4 diff (99.1 %id)
R41661	whole brain	.a	3530 to 3916	407 to 3				405/470 (86 %)	0 diff (100 %id)
R43150	whole brain	.a	3579 to 3910	356 to 11		AAA	Possibly primed on the genome, locally A rich (17/19 A in genome downstream of last aligned base)	346/348 (99 %)	19 diff (94.6 %id)
R36899	whole brain	.a	3585 to 3919	342 to 1				342/413 (82 %)	8 diff (98.1 %id)
TI_151772551		.b	1 to 492	95 to 589	P3Q A6V V16L	tiling clone,		495/1227 (40 %)	17 diff (98.7 %id)