Sequence
atgc intronic sequence ATGC exonic sequenceGCTATTGCCTCTGCCAGAATGAAAGGAGAATACCCTGAGAGGATGGGGCAACCAGAATGTCAGgtaattatggttacttgaactcaggccagggtttattagttaacaatggctagcaatctactgcatatgcattctgtgacaagaaatggtttgtctggtc...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g68860.3 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g68860.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G087032_T04 (Zea mays), 5'ss of exon 3
GCTATTGCCTCTGCCAGAATGAAAGGAGAATACCCTGAGAGGATGGGGCAACCAGAATGTCAGgtaattatggttacttgaactcaggccagggtttattagttaacaatggctagcaatctactgcatatgcattctgtgacaagaaatggtttgtctggtc-
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GCTATTGCCTCTGCCAGAATGAAGGGAGAATATCCTGAGAGAGCGGGACAGCCAGAGTGTCAGgtaactattataactgactcttctgtccttcagaaaca-cgagccatagaagttttacttttggaaatgtctttttttggttgaagtgctttggttcctgt
upper sequence: LOC_Os01g68860.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G107491_T03 (Zea mays), 5'ss of exon 3
GCTATTGCCTCTGCCAGAATGAAAGGAGAATACCCTGAGAGGATGGGGCAACCAGAATGTCAGgtaattatggttacttgaactcaggccagggtttattag--ttaacaatggctagcaatctactgcatatgcattctgtgacaa-gaaatggtttgtctggtc
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GCTATTGCCTCTGCCAGAATGAAGGGAGAATATCCTGAGAGAGTGGGACAGCCAGAGTGTCAGgtaactataataactgacgcttctgtcc---tttagaaacatgagcaatcgaagttttatttgtggaaatgtttttttggtcggtgctatatggtcactgact
upper sequence: LOC_Os01g68860.3 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv04s0023g00370.t01 (Vitis vinifera), 5'ss of exon 3
GCTATTGCCTCTGCCAGAATGAAAGGAGAATACCCTGAGAGGATGGGGCAACCAGAATGTCAGgtaattatggttacttgaactcaggccagggtttattagttaacaatggctagcaatctactgcatatgcattctgtgacaagaaatggtttgtctggtc-----
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GCTATTGCCACTGCAAGGATGAAAGGAGAGTTCCCGGAGAGAATGGGACAGCCAGAATGTCAGgcatgtgtcctattctttattt---tctttcccttataaatggcagtattt--cttcttcatgtatgtgctttttgaagttgtaaatttactatttgcctaaaatMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|29643926|gb|CB648933.1|CB648933EST: CCAGAATGAAAGGAGAATACCCTGAGAGGATGGGGCAACCAGAATGTCAG TATTATCTGAAGACTGGAACATGCAAGTTTGGGCCTACATGCAAATTCCAT
genomic: CCAGAATGAAAGGAGAATACCCTGAGAGGATGGGGCAACCAGAATGTCAGgtaattatgg ... ttctgttcagTATTATCTGAAGACTGGAACATGCAAGTTTGGGCCTACATGCAAATTCCAT
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTATTGCCTCTGCCAGAATGAAAGGAGAATACCCTGAGAGGATGGGGCAACCAGAATGTCAGgtaattatggttacttgaactcaggccagggtttattagttaacaatggctagcaatctactgcatatgcattctgtgacaagaaatggtttgtctggtc
- - - - - - - - - - - AAGGAG
- - - - - - - - - - - AGGAGA
- - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - AGGATG