Sequence
atgc intronic sequence ATGC exonic sequenceCACCTGGCCGAGCATTGCAGAGCTGAATATCCAAAGGCTACAAATTTCATATTATGGATTCTTGCGGAACTAGCTGTAGTTGCATGCGACATTCCTGAAGgtaccagagtgtaaaattttgagcttctgttgcatgacttgcgttttgcatttaatgagttgcagatctaattgaagtataaagttcagctgtttcatga...
Basic information
species | Oryza sativa |
transcript | LOC_Os06g46310.3 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 6
CACCTGGCCGAGCATTGCAGAGCTGAATATCCAAAGGCTACAAATTTCATATTATGGATTCTTGCGGAACTAGCTGTAGTTGCATGCGACATTCCTGAAGgtaccagagtgtaaaattttgagcttctgttgcatgacttgcgttttgcatttaatgagttgcagatctaattgaagtataaagttcagctgtttcatga--------------
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CATCTTGCAGAGCATTGCAGGGCTGAGTATCCCAAGGTCACAAATTTTGTCTTATGGATTCTTGCAGAACTTGCTGTTGTTGCATGTGACATTCCTGAAGgtatcaaaa---atacatttcagttgcttttt----gcatgttttttaaatttaagca----cagagctacttgggtttta---tccagccatttaataatactgcagatggtg
upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 5'ss of exon 6
CACCTGGCCGAGCATTGCAGAGCTGAATATCCAAAGGCTACAAATTTCATATTATGGATTCTTGCGGAACTAGCTGTAGTTGCATGCGACATTCCTGAAGgtaccagagtgtaaaattttgagcttctgttgcatgacttgcgttttgcatt-taatgagttgcagatctaattgaagtataaagttcagctgtttcatga--
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CATTTAGCAGAGCACTGCAGAATTGAATATCCAAAGGTGCCTAACTTCATCCTATGGGTTCTTGCTGAAATTGCTGTAGTTGCATGTGACATTCCTGAAGgtaataatgcct---tttatgtgcttgaaatttaataatatcgtacttcgttatcattcgttattagaaggcttggattggtgaaaccatctagagagggacaMapped 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|33653430|gb|CF276044.1|CF276044EST: ATTATGGATTCTTGCGGAACTAGCTGTAGTTGCATGCGACATTCCTGAAG TAATTGGAACTGCTTTTGCTTTGAACATGCTCTTTAAA-TCCCTG
genomic: ATTATGGATTCTTGCGGAACTAGCTGTAGTTGCATGCGACATTCCTGAAGgtaccagagt ... ttcttttcagTAATTGGAACTGCTTTTGCTTTGAACATGCTCTTTAAAATCCCTG
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACCTGGCCGAGCATTGCAGAGCTGAATATCCAAAGGCTACAAATTTCATATTATGGATTCTTGCGGAACTAGCTGTAGTTGCATGCGACATTCCTGAAGgtaccagagtgtaaaattttgagcttctgttgcatgacttgcgttttgcatttaatgagttgcagatctaattgaagtataaagttcagctgtttcatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG