Sequence
atgc intronic sequence ATGC exonic sequenceTGGTGGTTCTCTCAGTGAGAGCAAAACTGGAGAAGGCATTGAGATGCTTGGGGGGTATCTTCATTTCTCTGCACCAAGGCGTATCATAGAGTTGATCCAGgtatctctaacttccctacaagataacttgtttgaactaaagaaaaaaggatttcagttattctatttcgtttctattttaaggtttatttttcgaacag...
Basic information
species | Oryza sativa |
transcript | LOC_Os10g33275.1 |
intron # | 16 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os10g33275.2 (Oryza sativa), 5'ss of exon 15
lower sequence: GRMZM2G399212_T01 (Zea mays), 5'ss of exon 17
TGGTGGTTCTCTCAGTGAGAGCAAAACTGGAGAAGGCATTGAGATGCTTGGGGGGTATCTTCATTTCTCTGCACCAAGGCGTATCATAGAGTTGATCCAGgtatctctaacttccctacaagataacttgtttgaact----aaagaaaaaaggatttcagttattctatttcgtttctattttaaggtttatttttcgaacag
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TGGTGGTTCGCTTAGTCCGAGCAAAACTGGAGAAGGCATTGAGATGCTTGGGGGTTATCTTCATTTCTCGGCTCCAAAGCGTACCATAGAGTTGATTCAGgtataaccagctccactccaatata--ttgtctcaactttgaaaaaaaataatatcttcaattgtt-tgtgttatttttgctaaaaaagttgtttttgtacct-
upper sequence: LOC_Os10g33275.2 (Oryza sativa), 5'ss of exon 15
lower sequence: GLYMA10G10180.1 (Glycine max), 5'ss of exon 17
TGGTGGTTCTCTCAGTGAGAGCAAAACTGGAGAAGGCATTGAGATGCTTGGGGGGTATCTTCATTTCTCTGCACCAAGGCGTATCATAGAGTTGATCCAGgta----tctctaacttccctacaagataacttgtttgaactaaagaaaaaaggatttcagttattctatttcgtttctattttaaggtttatttttcgaacag
||||||| ||| ||||||| ||| || |||||||| |||||||| || || |||||||||||||| ||| || |||| ||||| || |||| || || | | | | || ||| | | | | || | ||| | || | | ||| | | | | | ||
TGGTGGTAATCTTGTCCCTAGCAAAAGTGGTGAGGGCATTGACATGCTTGGAGGTTACCTTCATTTCTCTGCTTCAAAAAGTGTCATTGAGTTAATAAGGgtaatgttccctctgtcctttcccagcaaacctatgctttgtctttataacttgttttaaaggatgtggctcc--ttcaaagcgaggaagtgcactcacaat--
upper sequence: LOC_Os10g33275.2 (Oryza sativa), 5'ss of exon 15
lower sequence: GLYMA02G35240.1 (Glycine max), 5'ss of exon 18
TGGTGGTTCTCTCAGTGAGAGCAAAACTGGAGAAGGCATTGAGATGCTTGGGGGGTATCTTCATTTCTCTGCACCAAGGCGTATCATAGAGTTGATCCAGgta------tctctaac--ttccctacaaga---taacttgtttgaactaaagaaaaaaggatttcagttattctatttcgtttctattttaaggtttatttttcgaacag
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TGGTGGTAATCTTGTCCCTAGCAAAAGTGGTGAGGGCATTGACATGCTTGGAGGTTACCTTCATTTCTCTGCTTCGAAAAGTGTCATCGAGTTAATAAGGgtaatgttccctctatcctttcccagcaaagctctgatgctttgtctttataagggatatggctcctttaaagcgaggaagtgcattcgcaatagttaat-----------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|29675438|gb|CB671713.1|CB671713EST: GGGGGTATCTTCATTTCTCTGCACCAAGGCGTATCATAGAGTTGATCCAG AGATTAAGAGGTGAATTGGACAAACTCCT
genomic: GGGGGTATCTTCATTTCTCTGCACCAAGGCGTATCATAGAGTTGATCCAGgtatctctaa ... tatttgacagAGATTAAGAGGTGAATTGGACAAACTCCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTGGTTCTCTCAGTGAGAGCAAAACTGGAGAAGGCATTGAGATGCTTGGGGGGTATCTTCATTTCTCTGCACCAAGGCGTATCATAGAGTTGATCCAGgtatctctaacttccctacaagataacttgtttgaactaaagaaaaaaggatttcagttattctatttcgtttctattttaaggtttatttttcgaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaaa