Sequence
atgc intronic sequence ATGC exonic sequence...tctgtgatattggcaatttgtttgttttaatcagtaatgaacgtttatccaatttgcctctaatgaagctcaagttgactatttactatgccttttgcagACAATTGGCTTTGTGGGTCCTGGTGTGGCTCTTCTTGGACTAAATGCAGCAAAGAGTCCAGTCATCGCTTCTGCTTGGCTTACTATCGCTGTAGGTTTGA
Basic information
species | Oryza sativa |
transcript | LOC_Os01g63290.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g63290.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM5G856598_T02 (Zea mays), 3'ss of exon 5
tctgtgatattggcaatttgtttgttttaatcagtaatgaacgtttatccaattt----gcctctaatgaag--ctcaagttgact-atttactatgcct------tttgcagACAATTGGCTTTGTGGGTCCTGGTGTGGCTCTTCTTGGACTAAATGCAGCAAAGAGTCCAGTCATCGCTTCTGCTTGGCTTACTATCGCTGTAGGTTTGA
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---------gtggca----gtttattttcatcaatattggttccttttttggttttgtcatttcaaatgtacacttcctgttgccttaacttctcttcctgactattctgcagTCAATTGGCTTTCTGGGGCCAGGTATTGCTTTGCTCTGTCTGAATGCAGCAAAGAGTCCAATCATTGCTTCAGCCTGGCTTACAGTTGCTGTTGGATTGA
upper sequence: LOC_Os01g63290.2 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 5
------tctgtgatattggcaatttgtttgttttaatcagtaatgaacgtttatccaatttgcctctaatgaagctcaagttgactatttactatgccttttgcagACAATTGGCTTTGTGGGTCCTGGTGTGGCTCTTCTTGGACTAAATGCAGCAAAGAGTCCAGTCATCGCTTCTGCTTGGCTTACTATCGCTGTAGGTTTGA
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caacctttttccatctttttactacccttgttctaatcctggat--tccttactgctaattgagtctattta---ttaagcaataaatctgctgcttctct-gcagTCAATTGGATTTGTTGGTCCTGGAATTGCTCTTATTGGTCTAACTGCAGCAAAAAGCCCATTAATTGCATCTGCTTGGCTTACTCTAGCCGTTGGGCTTAMapped 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|66920436|gb|CX107284.1|CX107284EST: GGCTTATCCAAAATGGTACAAGCATCACTTTGACTCGGAAGATAATGCAG ACAATTGGCTTTGT
genomic: GGCTTATCCAAAATGGTACAAGCATCACTTTGACTCGGAAGATAATGCAGgtgggctgtt ... ccttttgcagACAATTGGCTTTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatccaatttgcctctaatgaagctcaagttgactatttactatgccttttgcagACAATTGGCTTTGTGGGTCCTGGTGTGGCTCTTCTTGGACTAAATGCAGCAAAGAGTCCAGTCATCGCTTCTGCTTGGCTTACTATCGCTGTAGGTTTGA
tgcctttt CT-rich tract
tatttactat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgtgatattggcaatttgtttgttttaatcagtaatgaacgtttatccaatttgcctctaatgaagctcaagttgactatttactatgccttttgcagACAATTGGCTTTGTGGGTCCTGGTGTGGCTCTTCTTGGACTAAATGCAGCAAAGAGTCCAGTCATCGCTTCTGCTTGGCTTACTATCGCTGTAGGTTTGA
- tgtgata
- - - - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaagct