AceView: Gene:AJAP1, a comprehensive annotation of human, mouse and worm genes with mRNAs or ESTsAceView.

Expression: According to AceView, this gene is moderately expressed, only 29.6% of the average gene in this release. The sequence of this gene is defined by 35 GenBank accessions from 33 cDNA clones, some from kidney (seen 4 times), whole brain (4), brain (2), hippocampus (2), spleen (2), 2 pooled wilms' tumors, one primary and onemetastatic to brain (once), embryonic stem cells, cell lines H1, H7, andh9 (once) and 8 other tissues. We annotate structural defects or features in 4 cDNA clones.
Alternative mRNA variants and regulation: The gene contains 6 distinct gt-ag introns. Transcription produces 3 different mRNAs, 2 alternatively spliced variants and 1 unspliced form. There are 2 non overlapping alternative last exons and 3 validated alternative polyadenylation sites (see the diagram).
2 variants were isolated in vivo, despite the fact that they are predicted targets of nonsense mediated mRNA decay (NMD).
Efficacy of translation may be reduced by the presence of a shorter translated product (uORF) initiating at an AUG upstream of the main open reading frame (in variant bAug10).
Function: There are 10 articles specifically referring to this gene in PubMed. Functionally, the gene has been tested for association to diseases (Celiac disease; Oligodendroglioma) and proposed to participate in a process (cell adhesion). Proteins are expected to localize in various compartments (membrane, nuclear membrane, adherens junction, apical plasma membrane and 4 others). Putative protein interactors have been described (CDH1, CTNNB1).
Protein coding potential: The 2 spliced and the unspliced mRNAs putatively encode good proteins, altogether 2 different isoforms (1 complete, 1 partial), some containing some transmembrane domains [Psort2], apparently vertebrate specific. Finally proteins from this gene may be modulated by di-methylation; 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)
AA378441	synovial membrane	.b	1192 to 1415	1 to 224				224/224 (100 %)	1 diff (99.6 %id)
AF052143	brain	.b	1779 to 3235	1 to 1459		tiling clone, AAA		1459/1459 (100 %)	5 diff (99.7 %id)
AF175409	Fibrosarcoma	.b	1 to 2634	1 to 2633	exact	tiling clone,		2633/2633 (100 %)	1 diff (100.0 %id)
AL049672		.b	1229 to 2465	1 to 1237				1237/1237 (100 %)	0 diff (100 %id)
AL049673		.a	916 to 2070	1 to 1155		tiling clone,		1155/1155 (100 %)	0 diff (100 %id)
AW964143		.b	1193 to 1904	1 to 715				712/715 (99 %)	14 diff (98.1 %id)
BG190981		.b	1526 to 1812	1 to 288				288/288 (100 %)	10 diff (96.6 %id)
BG460226		.a	1503 to 2061	560 to 1			Submitted on the opposite strand	560/562 (99 %)	4 diff (99.3 %id)
BX115342	whole brain	.b	2718 to 3235	533 to 15		tiling clone, AAA		519/519 (100 %)	2 diff (99.7 %id)
CN428052	embryonic stem cells, cell lines H1, H7, andH9	.b	2021 to 2291	14 to 285				272/285 (95 %)	6 diff (97.9 %id)
BX478698		.b	1390 to 1875	1 to 486				486/486 (100 %)	2 diff (99.6 %id)
DA494180	brain	.b	1186 to 1450	2 to 266		capped		265/265 (100 %)	0 diff (100 %id)
DB542878	hippocampus	.b	2530 to 3212	1 to 668		tiling clone,	Submitted on the opposite strand	668/668 (100 %)	34 diff (95.0 %id)
CD679301	eye, Trabecular meshwork	.b	2127 to 2492	1 to 366				366/398 (91 %)	1 diff (99.8 %id)
T80070	whole brain	.b	1780 to 2108	1 to 336				336/433 (77 %)	10 diff (97.7 %id)
R52527	whole brain	.c-u	1165 to 1442	291 to 14		tiling clone, AAA	Internal priming: the 3' end of the oligo dT primed clone lies in the CDS	278/304 (91 %)	0 diff (100 %id)
R52575	whole brain	.c-u	1 to 412	1 to 421		tiling clone,	Internal priming: the 3' end of the oligo dT primed clone lies in the CDS	421/426 (98 %)	11 diff (97.5 %id)
H10068	whole brain	.b	2934 to 3235	320 to 18		AAA		303/303 (100 %)	3 diff (99.1 %id)
H10123	whole brain	.b	1780 to 2164	1 to 392				392/485 (80 %)	14 diff (97.2 %id)
AA452856		.b	1043 to 1461	1 to 418			Submitted on the opposite strand	418/418 (100 %)	1 diff (99.8 %id)
AA452993		.b	2076 to 2480	405 to 1			Submitted on the opposite strand	405/405 (100 %)	0 diff (100 %id)
AA835004		.a	1768 to 2071	306 to 4		tiling clone,		303/306 (99 %)	0 diff (100 %id)
AI913668	Kidney	.b	652 to 989	338 to 1				338/338 (100 %)	2 diff (99.5 %id)
AI862914	Kidney	.b	530 to 1018	1 to 489			Submitted on the opposite strand	489/489 (100 %)	3 diff (99.4 %id)
AI651303	Kidney	.b	2150 to 2625	475 to 1				475/475 (100 %)	1 diff (99.8 %id)
AW043855	pooled	.b	2114 to 2612	499 to 2				498/499 (99 %)	0 diff (100 %id)
BE350590	2 pooled Wilms' tumors, one primary and onemetastatic to brain, Kidney	.b	2198 to 2608	414 to 3				412/415 (99 %)	0 diff (100 %id)
BM914453	Spleen	.a	1638 to 2155	1 to 525		available from MGC,		525/1088 (48 %)	30 diff (97.3 %id)
U21460	hippocampus	.b	1231 to 1451	1 to 207				207/207 (100 %)	17 diff (91.8 %id)
NM_018836.3		.b	314 to 3236	1 to 2923	exact	RefSeq,		2923/2923 (100 %)	0 diff (100 %id)
NM_001042478.1		.a	1 to 2070	1 to 2070	exact	RefSeq,		2070/2070 (100 %)	0 diff (100 %id)
TI_149298500		.b	1990 to 2568	694 to 114		AAA		581/794 (73 %)	23 diff (97.2 %id)
BM983229	lung, Primary Lung Cystic Fibrosis EpithelialCells	.b	2208 to 2568	379 to 19		AAA		361/361 (100 %)	1 diff (99.8 %id)
AY282806		.b	1990 to 2568	694 to 114			Suspected internal deletion, this clone was ignored	581/794 (73 %)	23 diff (97.2 %id)
AI419771	pooled	.b	2208 to 2568	379 to 19			This clone was ignored	361/361 (100 %)	1 diff (99.8 %id)
BC041648	Spleen	.b	2208 to 2568	379 to 19		available from MGC, AAA	This clone was ignored	361/361 (100 %)	1 diff (99.8 %id)