Table 4

A list of genes mapping to nine orphan tagsSummary of the nine orphan tags that have complete 17 basepairs (bps) in the tag region matched to gene equences in human. The input sequences for BLAST were 21 bp long including four bps of restriction site. The starting position of the first nucleotide of the LongSAGE tag is the fifth position of the input sequence.

LongSAGE Tag

Start and end of matched location

No. of matched basepairs

Gene ID

Description of the sequence matched to the tag


AAATATCCAGAATAGGC

2-21

20

XM_378567.1

PREDICTED: Homo sapiens hypothetical LOC400505 (LOC400505), mRNA


CCAGCCGGGGTGACAGA

5-21

17

NM_000791.3

Homo sapiens dihydrofolate reductase (DHFR), mRNA

CCAGCCGGGGTGACAGA

5-21

17

NM_001874.3

Homo sapiens carboxypeptidase M (CPM), transcript variant 1, mRNA

CCAGCCGGGGTGACAGA

5-21

17

NM_024080.3

Homo sapiens transient receptor potential cation channel, subfamily M, member 8 (TRPM8), mRNA


CCAGTCTGGGCAACAAG

5-21

17

NM_017437.1

Homo sapiens cleavage and polyadenylation specific factor 2, 100kDa (CPSF2), mRNA

CCAGTCTGGGCAACAAG

5-21

17

NM_181776.1

Homo sapiens solute carrier family 36 (proton/amino acid symporter), member 2 (SLC36A2), mRNA


CCTGGCACTTTGGGAGG

5-21

17

NM_000641.2

Homo sapiens interleukin 11 (IL11), mRNA

CCTGGCACTTTGGGAGG

5-21

17

NM_000997.3

Homo sapiens ribosomal protein L37 (RPL37), mRNA

CCTGGCACTTTGGGAGG

5-21

17

NM_001009899.1

Homo sapiens KIAA2018 (KIAA2018), mRNA

CCTGGCACTTTGGGAGG

5-21

17

NM_001032999.1

Homo sapiens core-binding factor, runt domain, alpha subunit 2; translocated to, 2 (CBFA2T2), transcript variant 3, mRNA

CCTGGCACTTTGGGAGG

5-21

17

NM_001033564.1

Homo sapiens hypothetical protein LOC619208 (LOC619208), mRNA

CCTGGCACTTTGGGAGG

5-21

17

NM_007042.1

Homo sapiens ribonuclease P 14kDa subunit (RPP14), mRNA

CCTGGCACTTTGGGAGG

5-21

17

NM_030579.1

Homo sapiens outer mitochondrial membrane cytochrome b5 (CYB5-M), mRNA

CCTGGCACTTTGGGAGG

5-21

17

XM_371492.2

PREDICTED: Homo sapiens similar to signal-transducing adaptor protein-2; brk kinase substrate (LOC388949), mRNA

CCTGGCACTTTGGGAGG

5-21

17

XM_379458.2

PREDICTED: Homo sapiens hypothetical LOC401287 (LOC401287), mRNA

CCTGGCACTTTGGGAGG

5-21

17

XM_499056.1

PREDICTED: Homo sapiens hypothetical gene supported by AK127523 (LOC441190), mRNA

CCTGGCACTTTGGGAGG

5-21

17

XM_499503.1

PREDICTED: Homo sapiens hypothetical gene supported by AK127523 (LOC442499), mRNA


GACTGGAGGTGTGGGGA

4-21

18

NM_014636.1

Homo sapiens Ral GEF with PH domain and SH3 binding motif 1 (RALGPS1), mRNA


GGTGAGTGGGACCCAGG

1-21

21

NM_012289.3

Homo sapiens kelch-like ECH-associated protein 1 (KEAP1), transcript variant 2, mRNA


GTGCTGGGATAACTGGC

4-21

18

XM_499182.1

PREDICTED: Homo sapiens hypothetical gene supported by AK128305 (LOC441501), mRNA

GTGCTGGGATAACTGGC

5-21

17

NM_005431.1

Homo sapiens X-ray repair complementing defective repair in Chinese hamster cells 2 (XRCC2), mRNA

GTGCTGGGATAACTGGC

5-21

17

NM_016094.2

Homo sapiens COMM domain containing 2 (COMMD2), mRNA

GTGCTGGGATAACTGGC

5-21

17

XM_374973.1

PREDICTED: Homo sapiens similar to hypothetical protein (L1H 3 region) - human (LOC400025), mRNA


GTGGGTCCTCGGGTTGG

1-21

21

NM_194286.2

Homo sapiens KIAA1853 protein (KIAA1853), mRNA


TGGTACACACCTGTAGT

4-21

18

NM_001008528.1

Homo sapiens matrix-remodelling associated 7 (MXRA7), transcript variant 1, mRNA

TGGTACACACCTGTAGT

4-21

18

NM_152920.1

Homo sapiens egf-like module containing, mucin-like, hormone receptor-like 2 (EMR2), transcript variant 6, mRNA

TGGTACACACCTGTAGT

5-21

17

NM_014573.1

Homo sapiens hypothetical protein MAC30 (MAC30), mRNA


Li et al. BMC Bioinformatics 2006 7:504   doi:10.1186/1471-2105-7-504

Open Data