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Table 3 Analysis of cotton aquaporin sequence contigs in PlantGDB-assembled unique transcripts (PUT)a

From: Identification of the family of aquaporin genes and their expression in upland cotton (Gossypium hirsutumL.)

PUT ID

Gene

Sequence difference in ORF (nt/aa)

No. EST of gene/No. EST of PUT

Tissue abundanceb

RT-PCR detection in Figure 3c

41616

PIP1;1†

4/0

16/18

Fiber (10/16)

Co-detected

 

PIP1;14

 

2/18

Stem (2/2)

Co-detected

20977

PIP1;3†

6/2

8/10

Fiber (7/8)

Detected

 

PIP1;15

 

2/10

Mixed

n.a.

51785

PIP2;2

9/0

5/9

Mixed

n.a.

 

PIP2;12

 

4/9

Mixed

n.a.

368101081

PIP2;3†

9/3

9/13

Stem (5/9)

n.a.

 

PIP2;13

 

4/13

Stem (2/4)

n.a.

818101073

PIP2;5

9/3

> 20/92

Fiber (> 20)

n.a.

 

PIP2;6†

 

> 20/92

Fiber (> 20)

n.a.

295101081

TIP1;1†

15/2‡

16/50

Stem (9/16)

n.a.

 

TIP1;3†

 

> 20/50

Immature ovule (19/> 20)

n.a.

 

TIP1;8

 

1/50

Fiber (1/1)

Detected

83401

TIP1;5

16/3

25/29

Fiber (18/25)

n.a.

 

TIP1;14

 

4/29

Ovule (3/4)

n.a.

3730

TIP2;1†

8/1

16/28

Mixed

n.a.

 

TIP2;3†

 

12/28

Stem (5), root (2)

Detected

96185

TIP2;6

10/2

2/7

Root (2/2)

Co-detected

 

TIP2;7

 

5/7

Mixed

Co-detected

83990

NIP6;1†

2/1

1

Root (1/1)

n.a.

 

NIP6;2†

 

1

Fiber (1/1)

Detected

  1. †: Genes also identified by PCR cloning.
  2. ‡: Overall difference among three sequences.
  3. a: Manual inspection was performed to discriminate a set of genes that originally belonged to a single PUT sequence as indicated.
  4. b: mRNA abundance in specific tissues was determined from PlantGDB EST information.
  5. c: RT-PCR primers used in Figure 3 detected a single gene or both genes belonging to same PUT assembly sequence.
  6. n.a.: Not available.