Sequence
atgc intronic sequence ATGC exonic sequenceAAATCAACTGGTTTTATATGCTCAGATGGCCAATCTTGTCCAACTGATTCTTCCTTCATTCGAGCTTGATCTTAAGGAAATTACACATACCTTTTCCAAGgtaatgctactcaaagtcataaggttataaaaaatgttttaactactatagaagacaatgtatccaatgaataattgagcttaaaaaatacagttgtttc...
Basic information
species | Oryza sativa |
transcript | LOC_Os03g49730.4 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g49730.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G457881_T04 (Zea mays), 5'ss of exon 5
AAATCAACTGGTTTTATATGCTCAGATGGCCAATCTTGTCCAACTGATTCTTCCTTCATTCGAGCTTGATCTTAAGGAAATTACACATACCTTTTCCAAGgtaatgct--actcaaagtcataaggttataaaaa-atgttttaactactatagaagacaatgtatccaatgaataattgagcttaaaaaatacagttgtttc
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AAATCAACTTGTGCTCTATGCTCAGATGGCCAATCTTGTGAGCCTGATTCTTCCTTTTATTGAGCTTGACCTTAAGGAAATTGCACAAACTTTTTCTAAGgtaatacctaacataatgtttcatcatcatgtccataagtttatgttgtatttgcactcaaggtatatagc-attatttggctactactactatacaagat--
upper sequence: LOC_Os03g49730.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G457881_T02 (Zea mays), 5'ss of exon 6
AAATCAACTGGTTTTATATGCTCAGATGGCCAATCTTGTCCAACTGATTCTTCCTTCATTCGAGCTTGATCTTAAGGAAATTACACATACCTTTTCCAAGgtaatgct--actcaaagtcataaggttataaaaa-atgttttaactactatagaagacaatgtatccaatgaataattgagcttaaaaaatacagttgtttc
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-------------------------ATGGCCAATCTTGTGAGCCTGATTCTTCCTTTTATTGAGCTTGACCTTAAGGAAATTGCACAAACTTTTTCTAAGgtaatacctaacataatgtttcatcatcatgtccataagtttatgttgtatttgcactcaaggtatatagc-attatttggctactactactatacaagat--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|58669228|gb|CK057914.1|CK057914EST: TTCCTTCATTCGAGCTTGATCTTAAGGAAATTACACATACCTTTTCCAAG TTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGTCCCTTGGG
genomic: TTCCTTCATTCGAGCTTGATCTTAAGGAAATTACACATACCTTTTCCAAGgtaatgctac ... atatgtgcagTTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGCCCCTTGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATCAACTGGTTTTATATGCTCAGATGGCCAATCTTGTCCAACTGATTCTTCCTTCATTCGAGCTTGATCTTAAGGAAATTACACATACCTTTTCCAAGgtaatgctactcaaagtcataaggttataaaaaatgttttaactactatagaagacaatgtatccaatgaataattgagcttaaaaaatacagttgtttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA