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Table 1 Transcripts represented by SAGE tags enriched 30 fold or more in glomeruli

From: A human glomerular SAGE transcriptome database

Symbol

Gene Name

NlaIII long Tag

Sau3A Tag

G:TPM

Sau3A

G:TPM

NlaIII

P:TPM

NlaIII

K:TPM

NlaIII

Ratio

G: P

Ratio

G: K

Link

SAGE Genie

Link

Ref

NPHS2

Nephrosis 2, idiopathic, steroid-resistant (podocin)

TTTCCGTGACTCATCTA

CCTCACTGAA

1,534

2,287

0

48

Infinity

48

NPHS2

Ref:NPHS2

SOST

Sclerosteosis

ACATATGAAAGCCTGCA

TCGAGGAGAC

158

82

0

0

Infinity

 

SOST

 

MME

Membrane metallo-endopeptidase

CTGCAGTGTTCGAGTGG

TATAAAGCGA

271

102

0

0

4446

 

MME

Ref:MME

CLIC5

Chloride intracellular channel 5

AATCTGAACCAATTACC

CAGTCATCTG

1,038

3,593

5

24

719

150

CLIC5

Ref:CLIC5

NPHS1

Nephrosis 1, congenital, Finnish type (nephrin)

TAAACATAAGTATGCTC

  

1,041

2

0

549

 

NPHS1

Ref:NPHS1

TCF21

Transcription factor 21

CGAGTGCTGAGCAAGGC

ATAGGATAGC

451

817

2

0

514

 

TCF21

Ref:TCF21

CDKN1C

Cyclin-dependent kinase inhibitor 1C (p57, Kip2)

CCGCTGCGGGGCCCTGG

AGCGCCTGAG

383

490

1

0

506

 

CDKN1C

Ref:CDKN1C

DDN

Dendrin

TGAACTTGGCCACATCA

  

306

1

0

373

 

DDN

Ref:DDN

THYMU2010816

CDNA FLJ36413 fis, clone THYMU2010816

TATCACTGGGGAGGGAA

ATTAGTCAAT

203

449

2

0

285

 

THYMU2010816

 

FLJ22271

CDNA: FLJ22271 fis, clone HRC03191

GCTTTGTCGCAACGCTC

  

82

0

0

263

 

FLJ22271

 

PTPRO

Protein tyrosine phosphatase, receptor type, O

GATATACAACAGAAAAC

AACTGTGTAA

226

755

4

0

215

 

PTPRO

Ref:PTPRO

FGF1

Fibroblast growth factor 1 (acidic)

TAAAGGCCTTTAATAAG

TTCTTAGAAG

474

102

0

24

210

4

FGF1

Ref:FGF1

PTHR1

Parathyroid hormone receptor 1

TGACCAGGCGCTGGGGG

  

1,143

8

96

141

12

PTHR1

Ref:PTHR1

CLDN5

Claudin 5

GTAGGCGGCTGCCTCTT

  

82

1

0

127

 

CLDN5

 

LRRC2

Leucine rich repeat containing 2

GGACTGCACTCCAGCCT

  

82

1

0

108

 

LRRC2

 

AL049990

MRNA; cDNA DKFZp564G112 (from clone DKFZp564G112)

ACTTGGAAATAAACAAA

  

143

1

0

105

 

AL049990

 

HTRA1

HtrA serine peptidase 1

ACCGACAGGCCAAAGGA

CGCAGGCAGA

1,398

143

1

0

105

 

HTRA1

 

FAM65A

Family with sequence similarity 65, member A

GCTGCTGTCAGCACCCA

AGGCTGTTGT

316

204

2

0

99

 

FAM65A

 

SEMA3G

Semaphorin 3G

ACTGCCCCTGAGCTCTG

  

674

7

24

94

28

SEMA3G

 

SPOCK1

Sparc/osteonectin, cwcv and kazal-like domains proteoglycan 1

AGAATACCTTAATACTG

TTTAATACTT

226

122

1

0

92

 

SPOCK1

 

CRB2

Crumbs homolog 2 (Drosophila)

TGCAGCAGTGGCAGCCT

  

367

4

0

89

 

CRB2

 

ENPEP

Glutamyl aminopeptidase (aminopeptidase A)

GCCTGGAATTGGATACA

ATATGAATTA

632

143

2

96

79

1

ENPEP

Ref:ENPEP

SLC45A1

Solute carrier family 45, member 1

GGCGTGGACATCTCTCT

  

143

2

0

77

 

SLC45A1

 

TNNT2

Troponin T type 2 (cardiac)

ATGCATTTTGGGGGTTA

TGCTCCTCGC

338

184

2

24

76

8

TNNT2

 

CD34

CD34 molecule

GGACCAGGTCTTGGAGC

  

102

1

24

75

4

CD34

Ref;CD34

EFNB1

Ephrin-B1

AGGGAAGAGGAAAGTGC

  

102

2

0

68

 

EFNB1

Ref:EFNB1

IL1RL1

Interleukin 1 receptor-like 1 (ST2 Protein)

AGGGCAGGGACATCATC

TTTGTAGACT

158

82

1

0

64

 

IL1RL1

 

ST6GALNAC3

ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-

TGATGCCCTTGAACACC

  

286

5

0

63

 

ST6GALNAC3

Ref:ST6GALNAC3

 

acetylgalactosaminide alpha-2,6-sialyltransferase 3

          

NTNG1

Netrin G1

TGTAACAGCCCCCTCTA

  

102

2

0

63

 

NTNG1

 

SPOCK2

Sparc/osteonectin, cwcv and kazal-like domains proteoglycan 2

CATAAAGGAAATCAAAT

TGGTAGGTTG

248

1,123

18

0

61

 

SPOCK2

 

ABLIM2

Actin binding LIM protein family, member 2

ACACGCCAAGTCCCGTT

  

122

2

0

60

 

ABLIM2

Ref:ABLIM2

MGC16291

Hypothetical protein MGC16291

TGGGTCAAACTCTGAAA

  

122

2

24

58

5

MGC16291

 

BCAM

Basal cell adhesion molecule (Lutheran blood group)

CCCGCCCCCGCCTTCCC

ACGTGGTATC

632

3,205

55

788

58

4

BCAM

Ref:BCAM

TPPP3

Tubulin polymerization-promoting protein family member 3

GTGACCCCAAGGCCAGT

  

82

1

0

57

 

TPPP3

 

C4orf31

Chromosome 4 open reading frame 31

TACATAAAATTAAAGAG

TAATCTAAGT

226

429

8

0

57

 

C4orf31

 

GJA5

Gap junction protein, alpha 5, 40kDa

GACCATTCCTCGGAGTA

AATCTTTGAT

203

122

2

24

55

5

GJA5

RefGJA5

ITGB8

Integrin, beta 8

TCTTGTATCAATGGCAG

  

633

12

0

52

 

ITGB8

Ref:ITGB8

TSPAN2

Tetraspanin 2

CCAAGGCACTGAATTAA

  

143

3

0

49

 

TSPAN2

 

WT1

Wilms tumor 1

CTGGTATATGGCTTCAA

TTACAAGATA

406

143

3

0

49

 

WT1

Ref:WT1

COL4A3

Collagen, type IV, alpha 3 (Goodpasture antigen)

TGCATTATTTTCCAGAT

  

122

3

0

48

 

COL4A3

REF:COL4A3

ALS2CL

ALS2 C-terminal like

CGATGCTGACGGGACCC

  

796

17

0

47

 

ALS2CL

 

PLCE1

Phospholipase C, epsilon 1

AACGAACGTGGCTGTAT

  

163

4

0

46

 

PLCE1

Ref:PLCE1

WFS1

Wolfram syndrome 1 (wolframin)

ACCCTCCTGTCCAGCAG

  

204

4

0

46

 

WFS1

 

PCOLCE2

Procollagen C-endopeptidase enhancer 2

ATGGAGGTATGAGGCCT

TATGTTCTCT

271

408

9

24

45

17

PCOLCE2

 

MRGPRF

MAS-related GPR, member F

AGGACCCACTGGGCAGC

CTCTTAAGGC

316

327

8

0

43

 

MRGPRF

 

SPTB

Spectrin, beta, erythrocytic

CAATCTGGGGCTGGCCC

  

82

2

0

42

 

SPTB

Ref:SPTB

ATP10A

ATPase, class V, type 10A

TCCTCTGCGCCAGGGGA

  

204

5

0

41

 

ATP10A

 

USHBP1

Usher syndrome 1C binding protein 1

TCATAAACTGTCCTGGA

  

122

3

0

40

 

USHBP1

 

MAP6

Microtubule-associated protein 6

TACAGTAGTCTTGCTGG

  

327

8

0

39

 

MAP6

 

NFASC

Neurofascin homolog (chicken)

AGCAATGAAAAGGCCAA

  

184

5

0

39

 

NFASC

 

PLA2R1

Phospholipase A2 receptor 1, 180kDa

AATTTTGCAAAAAGGAA

  

82

2

0

39

 

PLA2R1

 

C1QL1

Complement component 1, q subcomponent-like 1

CGCGGCGGCGACGGCAC

  

184

5

24

39

8

C1QL1

 

TMEM178

Transmembrane protein 178

CTTGTTAAATTTTAATG

  

102

3

24

39

4

TMEM178

 

TP53I11

Tumor protein p53 inducible protein 11

TACCCCAAGGCCTGATG

  

102

3

0

37

 

TP53I11

 

SYNPO

Synaptopodin

ATATTAGGAAGTCGGGG

CATTTCTACC

519

592

16

0

37

 

SYNPO

Ref:SYNPO

DACH1

Dachshund homolog 1 (Drosophila)

TAGGACCTATGAAAATT

  

82

2

0

37

 

DACH1

 

TTMA

Two transmembrane domain family member A

CTTTATTGAGTGTTATC

  

225

6

0

37

 

TTMA

 

FABP1

Fatty acid binding protein 1, liver

ACATTGGGTGACATTGT

  

102

3

24

35

4

FABP1

 

RAMP3

Receptor (G protein-coupled) activity modifying protein 3

AGCTTGTGGCCTCTATC

  

1,000

29

0

34

 

RAMP3

 

EMCN

Endomucin

CTACTTTGTACATATAA

TTTTCTTTAA

361

449

13

0

34

 

EMCN

 

RAPGEF3

Rap guanine nucleotide exchange factor (GEF) 3

AGGAGGGGCTGGGACTG

  

184

6

72

33

3

RAPGEF3

 

FAM20B

Major histocompatibility complex, class I, B

TCCCGGCCCGGCCGCGG

  

82

2

0

33

 

FAM20B

 

NPNT

Nephronectin

GTAAAGGTATAAGCCTT

CATTTTTAAT

383

286

9

0

32

 

NPNT

Ref:NPNT

UACA

Uveal autoantigen with coiled-coil domains and ankyrin repeats

AGTTCTGTTTCACAAGT

  

82

3

0

32

 

UACA

 

KLK7

Kallikrein-related peptidase 7

AGCCACCACGGCCAGCC

  

592

19

96

31

6

KLK7

 

LIMS2

LIM and senescent cell antigen-like domains 2

CAGATGGAGGCCTCTGG

  

776

25

24

31

32

LIMS2

 

TYRO3

TYRO3 protein tyrosine kinase

GGGCGGGTCCTAGCTGT

  

1,143

37

72

31

16

TYRO3

 
  1. Transcripts represented by SAGE tags enriched 30 fold or more in glomeruli compared to pooled SAGE libraries from diverse tissues and cells. The gene symbol and gene name are shown for each tag sequence. Where available, the corresponding short Sau3A SAGE tag (Ref 9) is shown. SAGE tag frequencies are shown as Tags per Million (TPM). Sau3A TPM is derived from Ref 9. Enrichment in glomeruli relative to pooled libraries (G:P) and relative to whole kidney (G:K) is shown for each tag. This table with embedded links to SAGE Genie and links to references showing expression and/or function in glomeruli is provided as additional file 3
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BMC Nephrology

ISSN: 1471-2369

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