Table 2.

Genes with Alternatively Polyadenylated Transcripts in Contig NT_011515 of Chromosome 21[i]

Reference transcript UniGene cluster Description No. of tags Extent
D80001Hs.152629KIAA0179 protein611 kb
NM_003681Hs.38041Pyridoxal (pyridoxine, vitamin B6) kinase67 kb
NM_021941Hs.4746Hypothetical protein FLJ21324
NM_000100Hs.695Cystatin B (stefin B)21.4 kb
AI885390 Hs.49031ESTs
NM_003683Hs.110757NNP-1/Nop52, novel nuclear protein 121.2 kb
NM_020132Hs.3240201-acylglycerol-3-phosphate O-acyltransferase 3105.5 kb
AK026135 Hs.173138FLJ22482 fis, clone HRC10859
NM_031487Hs.284123hypothetical protein MGC4604
NM_003274Hs.94479Transmembrane protein 152 kb
AF289028 Hs.14155KIAA0653 protein, B7-like protein35 kb
NM_013369Hs.157237DNA (cytosine-5-)-methyltransferase 3-like30.9 kb
AI652007 (cluster retired)
NM_000383Hs.129829Autoimmune regulator20.6 kb
NM_002626Hs.155455Phosphofructokinase, liver[ii] 414 kb
N22796 Hs.12561ESTs
AA813142 Hs.323133ESTs
NM_004928Hs.153452Chromosome 21 open reading frame 221.1 kb
AJ003549 Hs.278715Chromosome 21 open reading frame 3122.2 kb
AJ003544 Hs.125774ESTs
T83849 Hs.194595ESTs
NM_003343Hs.192853Ubiquitin-conjugating enzyme E2G 222.3 kb
NM_006936Hs.85119SMT3 (suppressor of mlf two 3, yeast) homolog51.2 kb
NM_004339Hs.111126Pituitary tumour-transforming 1 interacting protein51.5 kb
NM_001112Hs.85302Adenosine deaminase, RNA-specific, B124.2 kb
NM_015227Hs.22982KIAA0958 protein20.9 kb
AL390181 Hs.170144CDNA DKFZp547J12560.9 kb
NM_016214Hs.78409Collagen, type XVIII, alpha 1[iii] 32.6 kb
BF110399 Hs.84190Solute carrier family 19 (folate transporter), member 1
NM_003056Hs.84190Solute carrier family 19 (folate transporter), member 142.6 kb
NM_001848Hs.108885Collagen, type VI, alpha 121 kb
X15882 Hs.159263Collagen, type VI, alpha 233 kb
NM_002340Hs.931992,3-oxidosqualene-lanosterol cyclase21 kb
NM_003906Hs.188481Minichromosome maintenance deficient 3-associated protein22.2 kb
AA527431 Hs.178588ESTs
NM_006272Hs.83384S100 calcium-binding protein, beta (neural)20.3 kb
NM_001535Hs.235887HMT1 (hnRNP methyltransferase)-like 1[iv] >6∼15 kb

[i] The distribution of transcript sequences and 3′ tags on the genome was visualized using ACEDB (see Fig. 1). The reference transcript was chosen from the NCBl curated RefSeq, EMBL human, or EST databases, in this order of preference. Transcripts matching multiple UniGene clusters are shown on multiple lines. The “Extent” column shows the distance separating the first from the last documented 3′ tag.

[ii] The 3′ UTR overlaps the entire extent of theC21orf2 gene on the other strand.

[iii] The 3′ UTR overlaps that of the folate transporter gene on the other strand. See the main text and Figure 1b for details.

[iv] This gene shows a very complex pattern of alternative splicing and polyadenylation that will require additional experimental data to sort out.

[v] EST, expressed sequence tag; UTR, untranslated region.