Sequence
atgc intronic sequence ATGC exonic sequenceTGATCTTGCTGATGACCAAAGGGAAGAGCTCGCACTTATTCGTCTTCAGTGAGGATCTCTTCTTCATCTACCTCCTCCCTCCGATCATCTTCAATGCAGGgtaagtagaaacgcttcggcgtgttcttgctgtggttagatttcggcttcagttcttttgttggcacatggtggtgtacaaggtttttctggggattggg...
Basic information
species | Oryza sativa |
transcript | LOC_Os07g47100.3 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G027851_T01 (Zea mays), 5'ss of exon 2
TGATCTTGCTGATGACCAAAGGGAAGAGCTCGCACTTATTCGTCTTCAGTGAGGATCTCTTCTTCATCTACCTCCTCCCTCCGATCATCTTCAATGCAGGgtaagtagaaacgc-ttcggcgtgttcttgc-tgtggttagatttcg---gcttcagttc--ttttgttggcacatggtggtgtacaaggtttttctggggattggg
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TGATCCTGCTGACCACCAAGGGGAAGAGCTCGCACATCCTCGTCTTCAGCGAGGACCTCTTCTTCATCTACCTCCTACCTCCCATCATCTTCAATGCCGGgtaagccaaacggcgtccgttgcttcctcgcacatgcttttgctttgctgatttcggtttcatctgagtggcgcaggctggt-tggtaggtttcgatcttg------
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA17G02560.1 (Glycine max), 5'ss of exon 2
TGATCTTGCTGATGACCAAAGGGAAGAGCTCGCACTTATTCGTCTTCAGTGAGGATCTCTTCTTCATCTACCTCCTCCCTCCGATCATCTTCAATGCAGGgtaagtagaaacgcttcggcgtgttcttgctgtggttagatttcggcttcagttcttttgttggcacatggtggtgtacaaggtttttctggggattggg-
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TTATATTGTTTACTACTGGAGGAAAAAGCTCTCATATACTTGTCTTCAGTGAAGATCTTTTCTTCATTTATCTTCTTCCACCCATCATCTTCAATGCCGGgttagttcactactcttgcttcttttttattatttttcttatttagctttcatttacatgctaa-actgcataatataagttgcattatgatttgttggaa
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA07G38160.1 (Glycine max), 5'ss of exon 2
TGATCTTGCTGATGACCAAAGGGAAGAGCTCGCACTTATTCGTCTTCAGTGAGGATCTCTTCTTCATCTACCTCCTCCCTCCGATCATCTTCAATGCAGGgtaagtagaaacgcttcggcgtgttcttgctgtggttagatttcggcttcagttcttttgttggcacatggtggtgtacaaggtttttctggggattggg
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TTATATTGTTTACCACGGGAGGAAAAAGCTCTCATATATTAGTTTTCAGTGAAGATCTTTTCTTCATTTACCTTCTTCCACCCATCATCTTCAATGCCGGgttagttcacttctcttaattttttatttttcttattcagctttcaattacatgcttaactgcataatttaagttgcattatgattttgatttgttagaaMapped 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|88358188|gb|CI605113.1|CI605113EST: GAGGATCTCTTCTTCATCTACCTCCTCCCTCCGATCATCTTCAATGCAGG TTTTCAGGTAAAGAAAAAGCAATTCTTCCGGAATTTCATGACGATCACATT
genomic: GAGGATCTCTTCTTCATCTACCTCCTCCCTCCGATCATCTTCAATGCAGGgtaagtagaa ... tttccatcagTTTTCAGGTAAAGAAAAAGCAATTCTTCCGGAATTTCATGACGATCACATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATCTTGCTGATGACCAAAGGGAAGAGCTCGCACTTATTCGTCTTCAGTGAGGATCTCTTCTTCATCTACCTCCTCCCTCCGATCATCTTCAATGCAGGgtaagtagaaacgcttcggcgtgttcttgctgtggttagatttcggcttcagttcttttgttggcacatggtggtgtacaaggtttttctggggattggg
- - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcggcg