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Table 2 Transcripts represented by SAGE tags enriched 10 – 30 fold 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

Ref

Link

COL4A4

Collagen, type IV, alpha 4

TAACTTTTGCAAGATGC

  

122

4

0

29

 

COL4A4

Ref:COL4A4

AQP1

Aquaporin 1

AGCTCCTGATCAGAGGC

  

102

4

0

27

 

AQP1

AQP1

NPR1

Natriuretic peptide receptor A/guanylate cyclase A

AGCAGAGACAATTAAAA

  

163

6

24

27

7

NPR1

NPR1

PTGDS

Prostaglandin D2 synthase 21kDa

ACGGAACAATAGGACTC

CCGGCCAGCC

5,323

2,368

88

24

27

99

PTGDS

 

CRHBP

Corticotropin releasing hormone binding protein

AATAAATACATTCAGAA

ATAGTTCTAA

654

286

11

 

27

 

CRHBP

 

TNNI1

Troponin I type 1 (skeletal, slow)

AGGCACCTGGGGCTTCT

TGCGGGCCAA

158

204

8

24

26

9

TNNI1

 

ODZ2

Odz, odd Oz/ten-m homolog 2

ACAGTCACCACGAGGAG

  

122

5

 

26

 

ODZ2

 

EPAS1

Endothelial PAS domain protein 1

GAACTTTTCTGTAATGG

  

82

3

48

24

2

EPAS1

 

PODXL

Podocalyxin-like

GAGGACACAGATGACTC

ATATATGTCT

2,323

3,369

141

48

24

70

PODXL

Ref:PODXL

TMEM204

Transmembrane protein 204

CGTGCGAGACACGTGTG

  

204

9

 

23

 

TMEM204

 

SMAD6

SMAD family member 6

TCTCCGGACGCCACCAA

  

163

7

 

23

 

SMAD6

Ref:Samd6

CLEC3B

C-type lectin domain family 3, member B

ACCGGCGCCCGCATCGC

GTGTAGCCGG

361

367

16

72

23

5

CLEC3B

 

IFITM3

Interferon induced transmembrane protein 3

AACCCCTGCTGCCTGGG

  

102

4

 

23

 

IFITM3

 

HOXA7

Homeobox A7

GTATGTTGTCTTGAGTT

  

82

4

 

21

 

HOXA7

 

CHI3L1

Chitinase 3-like 1 (cartilage glycoprotein-39)

GTATGGGCCCTGGACCT

CCCAAGCCTG

564

1,021

48

 

21

 

CHI3L1

 

FRY

Furry homolog (Drosophila)

TGAACTTGTTGCACTGC

  

408

19

 

21

 

FRY

 

PEA15

Phosphoprotein enriched in astrocytes 15

TCTGCCCTTTTTTGTGG

  

125

6

24

21

5

PEA15

 

ZNF250

Zinc finger protein 250

TGGAACCACAAGCAGCC

  

143

7

 

20

 

ZNF250

 

TGFBR3

Transforming growth factor, beta receptor III

GCAAATCCTGTCGGTCT

CTCCTGTCTA

180

122

6

 

20

 

TGFBR3

 

IGFBP5

Insulin-like growth factor binding protein 5

GAGTACGTTGACGGGGA

TTTGTCTTTT

3,496

367

18

 

20

 

IGFBP5

Ref:IGFBP5

FCN3

Ficolin (collagen/fibrinogen domain containing) 3

GACACCGAGGGGGGCGG

GTCAGCCACC

180

715

36

48

20

15

FCN3

 

LRRC32

Leucine rich repeat containing 32 (GARP gene)

TTGCATACCCTGACCCC

TTTGAAAACA

180

20

1

 

19

 

LRRC32

 

NOSTRIN

Nitric oxide synthase trafficker

CCACACGCAGATTCACT

TTTGAATGGG

158

61

3

 

19

 

NOSTRIN

Ref:Nostrin

HTRA1

HtrA serine peptidase 1

TTTCCCTCAAAGACTCT

  

1,409

74

24

19

59

HTRA1

 

ITGA1

Pelota homolog (Drosophila)

TGCCAGGTGCAGTCACA

  

122

6

24

19

5

ITGA1

 

TNNC1

Troponin C type 1 (slow)

TCCTCAACCCCAAATCC

  

184

11

 

17

 

TNNC1

 

DOPEY2

Dopey family member 2

AGAATTGCTTGAACCCA

  

1,347

79

263

17

5

DOPEY2

 

FOXC1

Forkhead box C1

AGCCTGTACGCGGCCGG

ATTGTTAAAG

519

245

15

24

17

10

FOXC1

 

CEP3

CDC42 effector protein (Rho GTPase binding) 3

ATGCTTCTGCAGAGACT

TTGGGCCCTC

226

163

10

 

17

 

CEP3

 

BGN

Biglycan

GCCTGTCCCTCCAAGAC

GAGAACGGGA

158

776

48

72

16

11

BGN

Ref:BGN

MAGI2

Membrane associated guanylate kinase

TATTAATAGTCACAGAA

  

102

7

 

16

 

MAGI2

 

AIF1L

Allograft inflammatory factor 1-like

GGAGTGTGCGTGGACTG

  

1,572

102

334

15

5

C9orf58

 

KCNH3

Potassium voltage-gated channel, subfamily H, member 3

TGCCCCTGCCTCTACCT

  

163

11

 

15

 

KCNH3

 

PARD6G

Par-6 partitioning defective 6 homolog gamma (C. elegans)

TCGTTCAGTGCCCCAGC

  

82

5

 

15

 

PARD6G

 

TM4SF18

Transmembrane 4 L six family member 18

CAAGTATACCACCCTTC

  

82

5

 

15

 

TM4SF18

 

TENC1

Tensin like C1 domain containing phosphatase (tensin 2)

AATAGGGGAAAAAAGAG

ACATGAATAG

519

531

37

 

15

 

TENC1

Ref:TENC1

DPP6

Dipeptidyl-peptidase 6

ACATTTGGTTAAAAAAA

  

82

6

 

14

 

DPP6

 

NES

Nestin

TGCTGACTCCCCCCATC

  

2,001

138

72

14

28

NES

Ref:NES

ADORA1

Adenosine A1 receptor

TGACTAATAAAAAACTG

  

82

6

 

14

 

ADORA1

Ref:ADORA1

VEGFA

Vascular endothelial growth factor A

TTTCCAATCTCTCTCTC

CCCTGGCTCC

248

1,450

109

24

13

61

VEGFA

Ref:VEGFA

ZNF135

Zinc finger protein 135

GGGAAACTCCATCTCTA

  

102

8

 

13

 

ZNF135

 

SLC48A1

Solute carrier family 48 (heme transporter), member 1

GTGCATCAGAGCGGGAA

  

82

6

 

13

 

SLC48A1

 

FARP1

FERM, RhoGEF (ARHGEF) and pleckstrin domain protein 1

GGGTAGTGTCAGTCGGA

  

122

10

72

13

2

FARP1

 

C1orf115

Chromosome 1 open reading frame 115

TCGAAGATTCACTGGGA

  

102

8

24

12

4

C1orf115

 

DAG1

Dystroglycan 1 (dystrophin-associated glycoprotein 1)

CAGAGACGTGGCTGGCC

  

1,286

104

48

12

27

DAG1

Ref:DAG1

PPAP2A

Phosphatidic acid phosphatase type 2A

AAACACCAACAACTGGG

CAGATTGGTC

248

286

23

 

12

 

PPAP2A

Ref:PPA2A

SEMA3B

Semaphorin 3B

TGCCGCCCGCAGCCTGC

  

612

50

72

12

9

SEMA3B

 

CDC14A

CDC14 cell division cycle 14 homolog A (S. cerevisiae)

TATTTTGTTATGAATAG

  

143

12

24

12

6

CDC14A

 

CIRBP

Cold inducible RNA binding protein

TGCCCGGGGAATGTTCC

  

82

7

 

12

 

CIRBP

 

CSRP1

Cysteine and glycine-rich protein 1

CAGGCGGGGTCCTAGGA

  

82

7

 

12

 

CSRP1

 

FAM20C

Family with sequence similarity 20, member C

CGCCCGTCGTGAATTCA

  

367

31

119

12

3

FAM20C

 

CLEC16A

C-type lectin domain family 16, member A

CTTCGTGGGTACTGAAC

  

122

10

24

12

5

CLEC16A

 

INF2

Inverted formin, FH2 and WH2 domain containing

TCCAGCCCCTGAAGTTG

  

184

16

48

12

4

INF2

 

BMP7

Bone morphogenetic protein 7

TGGAACCCGGTCTTGTG

  

204

18

 

12

 

BMP7

Ref:BPM7

ZDHHC6

Zinc finger, DHHC-type containing 6, transmembrane protein 4

TGGTACTTCTCTTTTCC

AATGGATGTT

1,128

592

51

 

12

 

ZDHHC6

 

PPAP2B

Phosphatidic acid phosphatase type 2B

ATGTAGGTGCCACCCAC

AACCACATGC

654

184

16

119

11

2

PPAP2B

Ref:PPA2B

TXNIP

Thioredoxin interacting protein

AGAAACTAGAGGGCAGG

  

102

9

 

11

 

TXNIP

 

ITGA3

Integrin, alpha 3

GTACTGTAGCAGGGGAA

CTCCACAGAG

180

817

72

24

11

34

ITGA3

Ref:ITGA3

C19orf63

Chromosome 19 open reading frame 63

AAAGAGTCGGGGCTGGA

  

82

7

48

11

2

C19orf63

 

IGFBP2

Insulin-like growth factor binding protein 2, 36kDa

GCCTGTACAACCTCAAA

CAGGGAGCCC

880

1,797

161

96

11

19

IGFBP2

Ref:IGFBP2

PTGER4

Prostaglandin E receptor 4 (subtype EP4)

TTTTGTTGCTCAGTGTT

  

306

28

 

11

 

PTGER4

 

FLRT3

Fibronectin leucine rich transmembrane protein 3

TATTTTTCTAGGCATAA

  

82

8

24

11

3

FLRT3

 

VWA1

Von Willebrand factor A domain containing 1

CCCAGGACACCAGCTGG

  

531

49

24

11

22

VWA1

 

LARGE

Like-glycosyltransferase

AAAGCCCAGTTCTGAAG

  

82

8

24

11

3

LARGE

 

LINGO1

Leucine rich repeat and Ig domain containing 1

AAGATGATATGAGGCCG

  

122

12

 

10

 

LINGO1

 

MYO1E

Myosin IE

TATGAATGTACTAAGTA

ATATACTGTA

248

245

26

 

9

 

MYO1E

Ref:MYO1E

  1. Transcripts represented by SAGE tags enriched 10 – 30 fold in glomeruli compared to pooled SAGE libraries. The gene symbol and gene name are shown for each unique NlaIII-anchored long SAGE 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 4
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BMC Nephrology

ISSN: 1471-2369

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