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Table 3 Wild-type liver 3’ UTR Apobec-1 RNA targets

From: Genome-wide identification and functional analysis of Apobec-1-mediated C-to-U RNA editing in mouse small intestine and liver

 

RNA

Chr

Position

Reference base

RNA-seq

Reads

Sanger

Edited/total

1.

Serinc1

10

57235791 (-)

G

38%

186

9.5%

(2/21)

2.

Dcn*

10

96980667 (+)

C

30%

104

14%

(3/21)

 

Dcn*

10

96980535 (+)

C

14%

370

14%

(3/21)

3.

Cd36

5

17288955 (-)

G

24%

45

23%

(5/21)

4.

Cybb*

X

9012717 (-)

G

23%

13

18%

(4/22)

 

Cybb*

X

9012852 (-)

G

23%

13

4.5%

(1/22)

 

Cybb*

X

9013390 (-)

G

14%

21

14%

(2/16)

5.

Colec10*

15

54297696 (+)

C

18%

17

5%

(1/20)

 

Colec10*

15

54295026 (+)

C

13%

39

5%

(1/20)

6.

Ube2l3*

16

17152203 (-)

G

16%

271

45%

(9/20)

7.

Abcc9*

6

142538042 (-)

G

14%

28

14%

(3/22)

 

Abcc9*

6

142538035 (-)

G

11%

52

18%

(4/22)

8.

Aldh6a1

12

85772761 (-)

G

12%

854

14%

(3/22)

9.

Tmem30a

9

79617629 (-)

G

11%

95

8%

(2/23)

10.

Mpeg1*

19

12539179 (+)

C

11%

66

5%

(1/21)

11.

Usp25

16

77116537 (+)

C

BTa

12

9%

(2/22)

12.

Sh3bgrl

X

106355759 (+)

C

BTb,c

49

17%

(3/18)

13.

Cmtm6

9

114658289 (+)

C

BTb,c

147

4%

(1/22)

14.

Sep15

3

144259976 (+)

C

BTb

379

19%

(4/19)

15.

Cyp4v3

8

46391931 (-)

G

BTb

350

14%

(3/22)

16.

Rnf128

X

136207009 (+)

C

BTb,c

260

32%

(7/22)

17.

B2m

2

121978638 (+)

C

BTb

8013

9%

(2/21)

  1. BT, below threshold.
  2. aLess than three reads supporting C-to-U editing.
  3. bLess than 10% C-to-U editing.
  4. cDoes not have one read per strand.
  5. (+) Sense strand.
  6. (-) Antisense strand.RNAs with asterisk are liver-specific (compare Figure 1).
  7. Remaining RNAs are shared between liver and intestine.
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Genome Biology

ISSN: 1474-760X

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