Sequence
atgc intronic sequence ATGC exonic sequenceCAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccctgaatctgtccaattattctaattttatggaattctgattatttactcaccgtgacagcgtggctcgtctcaatggtgtaaataaag
Basic information
species | Oryza sativa |
transcript | LOC_Os08g26870.3 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g26870.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G006468_T04 (Zea mays), 5'ss of exon 10
CAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccctgaa--tctgtccaattattctaattttatggaatt-ctgattatttactcaccgtgacagcgtggctc-gtctcaatgg-tgtaaataaag
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CATCATGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGACAGgttaaagtctaaacttgtgtagctctgtttttctatccagaaattgtcaatctgcagatctgtttttgtttttgacttgataacgctgacttgataactcctaacag--
upper sequence: LOC_Os08g26870.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G053531_T01 (Zea mays), 5'ss of exon 10
CAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccc---tgaatctgtccaattattctaattttatggaatt-ctgattatttactcaccgtgacagcgtggctcgtctcaatggtgtaaataaag
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CATCATGGAAGGACAAACTGATTCGGCTCAGGTCTAAGCGGGAGAACTGGGCCTGAGAGgttaaaagtctaaacttgtgtaactctgttttcctatctagaatttttcaatttgcagacccgttattgtttttaacttggtaacttttaacag--------------
upper sequence: LOC_Os08g26870.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G006468_T03 (Zea mays), 5'ss of exon 10
CAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccctgaa--tctgtccaattattctaattttatggaatt-ctgattatttactcaccgtgacagcgtggctc-gtctcaatggtgtaaataaag
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CATCATGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaagtctaaacttgtgtagctctgtttttctatccagaaattgtcaatctgcagatctgtttttgtttttgacttgataacgctgacttgataactccta-----
upper sequence: LOC_Os08g26870.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G006468_T05 (Zea mays), 5'ss of exon 7
-----------------------------------------CAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccctgaa--tctgtccaattattctaattttatggaatt-ctgattatttactcaccgtgacagcgtggctc-gtctcaatgg-tgtaaataaag
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TTCTATTGAAGGTTGATTGATTTATCTGTTGGCTTCGACAGCATCATGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGACAGgttaaagtctaaacttgtgtagctctgtttttctatccagaaattgtcaatctgcagatctgtttttgtttttgacttgataacgctgacttgataactcctaacag--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|86436048|gb|CI107281.1|CI107281EST: GGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAG ACGAAGCACTGTTGAATCCCAGAATGCATTCCAGATGACTGATACTGTCTA
genomic: GGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagct ... gtaaataaagACGAAGCACTGTTGAATCCCAGAATGCATTCCAGATGACTGATACTGTCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccctgaatctgtccaattattctaattttatggaattctgattatttactcaccgtgacagcgtggctcgtctcaatggtgtaaataaag
- - - - - - - - - - ATGCTG
- - - - - - - - - - TGCTGC
- - - - - - - - - - - GCTGCT