Table 1 |
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|
LongSAGE tags matched to known and predicted miRNA precursors. |
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|
miRNA (1) |
longSAGE tags (2) |
Chr. |
EST |
#libs |
Tag counts |
Tissue (mouse Theiler Stage) |
|
|
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|
Human SAGE tags matched to known miRNAs |
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|
hsa-mir-302a |
TTTTGGTGATGGTAAGT |
4q25 |
No |
1 |
1 |
Embryonic stem cell |
|
hsa-mir-302b (3) |
GAAGTGCTTTCTGTGAC |
4q25 |
Yes |
5 |
9 |
Embryonic stem cell |
|
hsa-mir-302c |
TTTCAGTGGAGGTGTCT |
4q25 |
Yes |
1 |
2 |
Embryonic stem cell |
|
hsa-mir-302d |
TTTGAGTGTGGTGGTTC |
4q25 |
No |
4 |
6 |
Embryonic stem cell |
|
hsa-mir-7-1 (4) |
CCTCTACAGGACAAATG |
9q21 |
No |
3 |
3 |
White blood cell, breast tumor, stem cell |
|
hsa-let-7i (4) |
GCCCTGGCTGAGGTAGT |
12q14 |
No |
4 |
4 |
Embryonic stem cells and Fetal brain |
|
hsa-mir-21 |
GCTGTACCACCTTGTCG |
17q23 |
Yes |
2 |
2 |
White blood cell, breast tumor |
|
hsa-mir-125a (4) |
TTGCCAGTCTCTAGGTC |
19q13 |
No |
1 |
1 |
breast tumor (myofibroblast) |
|
Human SAGE tags matched to predicted miRNAs |
||||||
|
Lim et al. [4] |
CTACTCTCACTGAGTAC |
5p21 |
No |
1 |
Embryonic stem cell |
|
|
cand525-HS |
CGGAGCCCCCGGGCTTG |
11q13 |
No |
4 |
Embryonic stem cell and breast & lung cancer |
|
|
Mouse SAGE tags matched to known miRNAs |
||||||
|
mmu-mir-29b-2 (3) |
GTGGCTTAGATTTTTCC |
1qH6 |
Yes |
2 |
2 |
Heart bulbous cordis (TS14 embryo) |
|
mmu-mir-205 |
GAGCTGCCAGCGGTGGA |
1qH6 |
Yes |
7 |
17 |
Brain, forelimb & skin (embryo) |
|
mmu-mir-130a |
CCTTTGCTGCTGGCCGG |
2qD |
Yes |
1 |
1 |
Branchial Arch embryonic tissue |
|
mmu-mir-133a-2 |
GCCCAGCCAGAGGACAC |
2qH4 |
Yes |
4 |
4 |
Heart ventricle (TS14-19), Sk. muscle (TS25) |
|
mmu-mir-29a |
ACCTCTTGTGACCCCTT |
6qA3 |
No |
1 |
1 |
Ovary (21 days post natal) |
|
mmu-mir-425 |
GAAAGTGCTTTGGAATG |
9qF2 |
Yes |
3 |
8 |
Visual cortex(27days post natal), Pancreas (TS20) |
|
mmu-mir-331(4) |
CAAGCTGAAAGCACTCC |
10qC2 |
Yes |
1 |
1 |
Brain – Amygdala (Post natal day 7) |
|
mmu-let-7i |
GCCCTGGCTGAGGTAGT |
10qD2 |
Yes |
4 |
4 |
Sm. Intestine (TS24), Lung (TS26), Neural tube(TS13), Pancreas |
|
mmu-mir-21 |
GCTGTACCACCTTGTCG |
11qC |
Yes |
2 |
2 |
Placenta (TS22), large intestine (TS24) |
|
mmu-mir-196a-1 |
GCAGTTACTGCTTCTTG |
11qD |
No |
3 |
3 |
Endoderm (Definitive), kidney (TS24), testis |
|
mmu-mir-337 (3) |
CAGGAGTTGATTGCACA |
12qF1 |
No |
1 |
1 |
Adrenal gland (TS22 embryo) |
|
mmu-mir-485 (4) |
TGTGATACTTGGAGAGA |
12qF1 |
No |
1 |
1 |
Skin (TS21) |
|
mmu-mir-351 (3,4) |
GCACCTCCGTTTCCCTG |
XqA5 |
Yes |
2 |
2 |
Heart ventricle (TS14 embryo) |
|
mmu-mir-92-2 |
CCCATTCATCCACAGGT |
XqA5 |
No |
1 |
1 |
Thymus (TS23 embryo) |
|
Mouse SAGE tags matched to predicted miRNAs |
||||||
|
cand185-MM |
TGACTGCCTGTCTGTGC |
1qH2 |
Yes |
1 |
1 |
Fibroblast cell line (embryonic) |
|
cand847-HS |
GTGAGCAGATGATGCAT |
2qH1 |
Yes |
1 |
1 |
Brain – Whole (TS20 embryo) |
|
cand136-MM |
AACATTATTTCTTGTGT |
4qD2 |
No |
1 |
1 |
Adult testis |
|
cand407-MM |
GAGTCTTCCAAGCCAAG |
4qF4 |
No |
3 |
3 |
Adult bladder & mammary gland |
|
cand913-RN |
TGACGTCTGAGGAGCGG |
11qE2 |
Yes |
1 |
1 |
Brain telencephalon dorsal (TS20 embryo) |
|
cand219-MM |
GCCAATCTCCTTTCGGC |
12qF1 |
Yes |
2 |
6 |
Visual cortex (27 days post natal) |
|
cand202-MM |
GTAGGCTTTCATTCATT |
12qF1 |
No |
2 |
2 |
Branchial arch embryonic tissue (TS15) |
|
cand239-MM |
CAGCTTTGGAGACGCCA |
16qC3 |
No |
1 |
1 |
Brain – Preplate (TS21 embryo) |
|
cand525-MM |
CGGAGCCCCCGGGCTTG |
19qA |
No |
9 |
9 |
Multiple normal tissues |
|
|
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|
(1) Except the one marked as Lim et al. [4], all predicted miRNAs are based on Berezikov et al. [7]. Cand219-MM and Cand202-MM are also predicted by Sewer et al. [9]. (2) "CATG" sites before each SAGE tags had been omitted. (3) SAGE tags match miRNA hairpin sequences without extension. (4) These miRNAs are listed as known in miRBASE based on their homolog to entries in other species. |
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|
Ge et al. BMC Genomics 2006 7:285 doi:10.1186/1471-2164-7-285 |
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