Sequence
atgc intronic sequence ATGC exonic sequenceGTGAAAGTGTTCCAGCAGGAGAATTACCTCGCTAATTGGATTCAGgtgtgccacattttacttgatgttgcacgtcaatagccttttctgttttaatgtgatgacacctctaagatggagctacattcatttatcctttctgtggtttgaag
Basic information
species | Oryza sativa |
transcript | LOC_Os10g11140.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os10g11140.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G025854_T05 (Zea mays), 5'ss of exon 3
GTGAAAGTGTTCCAGCAGGAGAATTACCTCGCTAATTGGATTCAGgtgtgccacattttacttgatgttgcacgtcaatagccttttctgttttaatgtgatgacacctctaagatggagctacattcatttatcc--tttctgtggtttgaag
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GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgcaatttg-ttgctgttgcacttatgtag-------------------atcata------------agccctattgatttatccattttctgtggtttcaag
upper sequence: LOC_Os10g11140.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G025854_T02 (Zea mays), 5'ss of exon 3
-------------------------------------------------------GTGAAAGTGTTCCAGCAGGAGAATTACCTCGCTAATTGGATTCAGgtgtgccacattttacttgatgttgcacgtcaatagccttttctgttttaatgtgatgacacctctaagatggagctacattcatttatcc--tttctgtggtttgaag
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TCCTGTATGGTGACACATAATGGATTGCGATAGCATTCTGTGCTGTTCTTTTCAGGTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgcaatttg-ttgctgttgcacttatgtag-------------------atcata------------agccctattgatttatccattttctgtggtttcaagMapped 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|29681950|gb|CB678225.1|CB678225EST: GTGAAAGTGTTCCAGCAGGAGAATTACCTCGCTAATTGGATTCAG GCTCTGTTCAATTCATTGCCCCCGGAGGATTATGTTGGTGGAACCCTTGTG
genomic: GTGAAAGTGTTCCAGCAGGAGAATTACCTCGCTAATTGGATTCAGgtgtgccaca ... tggtttgaagGCTCTGTTCAATTCATTGCCCCCGGAGGATTATGTTGGTGGAACCCTTGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGAAAGTGTTCCAGCAGGAGAATTACCTCGCTAATTGGATTCAGgtgtgccacattttacttgatgttgcacgtcaatagccttttctgttttaatgtgatgacacctctaagatggagctacattcatttatcctttctgtggtttgaag
- - - - - - - - AGGAGA
- - - - - - - - GGAGAA