Sequence
atgc intronic sequence ATGC exonic sequenceGTGGATCTGGGGTTACTGGGTTTCACCACTGATGTACGGGTATAATGCTCTAGCAGTCAATGAATTCTACTCTCCTCGGTGGATGAACAAGTTTGTACTGgtaagctcattatagcactgccttttcacttgtttgcgtatagaggttctttacagtccttgaggaagtatcacaaggtacaacagaaaaggcttaccttgtagtaccgcctcaagaaccttaaaatcccttgcaaatatgttttctgacaatgtttgcatgcatcttgacag
Basic information
species | Oryza sativa |
transcript | LOC_Os06g36090.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g36090.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G029506_T01 (Zea mays), 5'ss of exon 11
GTGGATCTGGGGTTACTGGGTTTCACCACTGATGTACGGGTATAATGCTCTAGCAGTCAATGAATTCTACTCTCCTCGGTGGATGAACAAGTTTGTACTGgtaagctcattatagcactgccttttcacttgtttgcgtatagaggttctttaca--gtccttgaggaagtatcacaaggtacaacagaaaaggcttaccttgtagtaccgcctcaagaaccttaaaatcccttgcaaatatgttttctgacaatgtttgcatgcatcttgacag
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GTGGATCTGGGGCTACTGGATCTCACCCTTGATGTATGGATACAATGCTCTAGCTGTTAATGAATTCTATGCCCCTCGGTGGATGAATAAGTTTGTCCTGgtacagtcactactacgtagatttttcactgcttgacgattttctcttgttgacaaggtgtatgtgcttatgtctgtag------------------------------------------------------------------------------------------------
upper sequence: LOC_Os06g36090.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G366146_T01 (Zea mays), 5'ss of exon 7
GTGGATCTGGGGTTACTGGGTTTCACCACTGATGTACGGGTATAATGCTCTAGCAGTCAATGAATTCTACTCTCCTCGGTGGATGAACAAGTTTGTACTGgtaagctcattatagcactgccttttcacttgtttgcgtatagaggttctttacagtccttgaggaagtatcacaaggtacaacagaaaaggcttaccttgtagtaccgcctcaagaaccttaaaatcccttgcaaatatgttttctgacaatgtttgcatgcatcttgacag
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GTGGATTTGGGGATACTGGATTTCACCTTTAATGTATGGATACAATGCTCTAGCAGTCAATGAATTCTATTCTCCTCGGTGGATGAATAAGTTTGTACTGgtatgctcactacatcattgttttttcact-gctta-----aggctttttttgttgacaaggtgtatgtgctcatgtttgtag------------------------------------------------------------------------------------------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|29673478|gb|CB669753.1|CB669753EST: TAGCAGTCAATGAATTCTACTCTCCTCGGTGGATGAACAAGTTTGTACTG GATAACAATGGCGTTCCTAAAAGACTACGAATAGCTCTGATGGAAGGTGCC
genomic: TAGCAGTCAATGAATTCTACTCTCCTCGGTGGATGAACAAGTTTGTACTGgtaagctcat ... atcttgacagGATAACAATGGCGTTCCTAAAAGACTAGGAATAGCTCTGATGGAAGGTGCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGATCTGGGGTTACTGGGTTTCACCACTGATGTACGGGTATAATGCTCTAGCAGTCAATGAATTCTACTCTCCTCGGTGGATGAACAAGTTTGTACTGgtaagctcattatagcactgccttttcacttgtttgcgtatagaggttctttacagtccttgaggaagtatcacaaggtacaacagaaaaggcttaccttgtagtaccgcctcaagaaccttaaaatcccttgcaaatatgttttctgacaatgtttgcatgcatcttgacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA