Sequence
atgc intronic sequence ATGC exonic sequenceCGCTTATCGAGATCTCAGCAGGGAGCAATATGAAAGCTGGAATGAGAAGTTTATTCAAGCTAAATCTTCTTTACGTGATCGTGATAAGAAGCTTGATGAGgcatgcatcttttggttattttatttgtatactgtggaaatgcccttttttattttctgagctcgtataatttgccacaatctggcctgttatcgttgca...
Basic information
species | Oryza sativa |
transcript | LOC_Os10g27220.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os10g27220.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA18G16990.1 (Glycine max), 5'ss of exon 11
CGCTTATCGAGATCTCAGCAGGGAGCAATATGAAAGCTGGAATGAGAAGTTTATTCAAGCTAAATCTTCTTTACGTGATCGTGATAAGAAGCTTGATGAGgc-atgcatcttttggtta---------ttttatttgtatactgtggaaatgcccttttttattttctgagctcgtataatttgccacaatctggcctgttatcgttgca
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AGCCTACAAAGAATTGCATCCTGATGTTTATGAAAGCTGGAATGAGAAGTTTATCCAGGCCAAGTCTTCTCTAAATGATCGTGAAAAGAAATTGGATGAGgttaagtttatcctacttgcacagaagcttctatatgcatatttagcatcaaacaatttatattttttga------atggattacctcaataag--tagttaaatttc--
upper sequence: LOC_Os10g27220.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA08G40530.1 (Glycine max), 5'ss of exon 19
CGCTTATCGAGATCTCAGCAGGGAGCAATATGAAAGCTGGAATGAGAAGTTTATTCAAGCTAAATCTTCTTTACGTGATCGTGATAAGAAGCTTGATGAGgcatgcatcttttggttattttatttgtatact-gtggaaatgcccttttttattttctga--gctcgtataatttgccacaatctggcctgtta--tcgttgca----
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AGCCTACAAAGAATTGCATCCTGATGTTTATGAAAGCTGGAATGAGAAGTTTATCCAGGCCAAGTCTTCTCTAAATGATCGTGAAAAGAAATTGGATGAGg--------ttcagtttatcctacttgcatggaagcttttatgtgcatatttagcatcaaacagtttatattttttga-ataggttaccttgataagtagttaaatttc
upper sequence: LOC_Os10g27220.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv00s0189g00030.t01 (Vitis vinifera), 5'ss of exon 18
CGCTTATCGAGATCTCAGCAGGGAGCAATATGAAAGCTGGAATGAGAAGTTTATTCAAGCTAAATCTTCTTTACGTGATCGTGATAAGAAGCTTGATGAGgcatgcatctt--ttggttattttatttgtatactgtggaaatgcccttttttattttctgagctcgtataatttgccacaatctggcctgttatcgttgca
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AGCTTATAGAGATTTAAGTACTGATATGTATGAACATTGGAATGAGAAATTTATCCAGGCAAAATCTTCTTTACGGGACCGTGAAAAGAAGTTGGACGAGgtatatcctatgtttggatgcactcttttttatttttgaagcttttacgtttgaaactttttttttggccaaatgaagatgatgctgctaactctttttt--Mapped 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|88412264|gb|CI573540.1|CI573540EST: TTATTCAAGCTAAATCTTCTTTACGTGATCGCGATAAGAAGCTTGATGAG GTGGCTGAGTTGATTGAAAAAGACCTTGTATTGGTAGGGTGTACTGCTATT
genomic: TTATTCAAGCTAAATCTTCTTTACGTGATCGTGATAAGAAGCTTGATGAGgcatgcatct ... atccctgtagGTGGCTGAGTTGATTGAAAAAGACCTTGTATTGGTAGGGTGTACTGCTATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGCTTATCGAGATCTCAGCAGGGAGCAATATGAAAGCTGGAATGAGAAGTTTATTCAAGCTAAATCTTCTTTACGTGATCGTGATAAGAAGCTTGATGAGgcatgcatcttttggttattttatttgtatactgtggaaatgcccttttttattttctgagctcgtataatttgccacaatctggcctgttatcgttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC