Sequence
atgc intronic sequence ATGC exonic sequenceGCAATCATTGATGCTGCATCCTATGTACCTCCACCCCCTTCAGAAGAGCAAAAGAAGAAGGTTGAAAAAATgtaagctgctattttttcttccatctgctcccttcaatttccgttgttttcagttattttatttctttagaaagtccaatgcagtcatcattacttctgc...
Basic information
species | Oryza sativa |
transcript | LOC_Os03g14510.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g14510.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G170532_T01 (Zea mays), 5'ss of exon 6
GCAATCATTGATGCTGCATCCTATGTACCTCCACCCCCTTCAGAAGAGCAAAAGAAGAAGGTTGAAAAAATgtaagctgctattttttcttccatctgctcccttcaatttccgttgttttcagttattttatttctttagaaagtccaatgcagtcatcattacttctgc--
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GCAATCATTGATGCTGCATCATATGTTCCTCCACCCCCAACAGAAGACCAAAAGAAAAAGATTGAAAAAATgtaagctgt--ttatttcactagttatttccttctaattcatgtttcaattagtaattgtatggcataaactgcaccaaagtgctcaataatatctaatcct
upper sequence: LOC_Os03g14510.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA17G14410.1 (Glycine max), 5'ss of exon 6
GCAATCATTGATGCTGCATCCTATGTACCTCCACCCCCTTCAGAAGAGCAAAAGAAGAAGGTTGAAAAAATgtaagctgctattttttcttccatctgctcccttcaatttccgttgttttcagttattttatttctttagaaagtccaatgcagtcatcattacttctgc----------------------------------------------------
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GAAATCATTGATGCGGCATCTTATGTTCCGCCGCCTCCCTCAGAAGAGCAAAAGAAGAAAATTGCGAAGATgtaag--agcacttctctttttatgt-tttctaatacttcaggttaaatacaatttcttattttgggtaccattttgcttgtggcttctattacactagaatggtgaagggcatgtaactgacagctgttaattaaatttgcacttttgaag
upper sequence: LOC_Os03g14510.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA05G03930.1 (Glycine max), 5'ss of exon 6
GCAATCATTGATGCTGCATCCTATGTACCTCCACCCCCTTCAGAAGAGCAAAAGAAGAAGGTTGAAAAAATgtaagctgctattttttcttccatctgctcccttcaatttccgttgttttcagttattttatttctttagaaagtccaatgcagtcatcattacttctgc----------------------------------------------------
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GAAATCATTGATGCAGCATCTCATGTCCCACCACCTCCCTCAGAAGATCAAAAGAAGAAAATTGCAAAGATgtaag--agcacttctctttttgtgt-tttctagtacttcaggttaaatacaatttcttattttcaccaccattttgtttgtggcttctattacactagaatgatgaagggcatgtgactgacagctgttaatcaaatttgcacttttgaagMapped 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|88963934|gb|CI032851.1|CI032851EST: TATGTACCTCCACCCCCTTCAGAAGAGCAAAAGAAGAAGGTTGAAAAAAT TGCTGCAGCCGCTGAAAGGAAGAGACTTCAGAAGAAGAAAGTGCTTTCGCA
genomic: TATGTACCTCCACCCCCTTCAGAAGAGCAAAAGAAGAAGGTTGAAAAAATgtaagctgct ... ttcatttcagTGCTGCAGCCGCTGAAAGGAAGAGACTTCAGAAGAAGAAAGTGCTTTCGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAATCATTGATGCTGCATCCTATGTACCTCCACCCCCTTCAGAAGAGCAAAAGAAGAAGGTTGAAAAAATgtaagctgctattttttcttccatctgctcccttcaatttccgttgttttcagttattttatttctttagaaagtccaatgcagtcatcattacttctgc
- - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG