Sequence
atgc intronic sequence ATGC exonic sequenceAGGTACTTCTTCTTGCGGGAAGTGGAATTTGGCAATGACGGGGACTATTCAGAGGAACGCTTTATCAATATAGTCAATGCGCATCTTGCCAACACCATTGgtatttctactcaaagcacctttgtttctggagtataaaacgtcttgatggcttttagatttttctttagctggtgtagaagtttttcaccaatgcgcatctttatttgttgttaatgatcattctctcatcttaaacag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g11120.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g11120.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G029055_T02 (Zea mays), 5'ss of exon 8
AGGTACTTCTTCTTGCGGGAAGTGGAATTTGGCAATGACGGGGACTATTCAGAGGAACGCTTTATCAATATAGTCAATGCGCATCTTGCCAACACCATTGgtatttctactcaaagcacctttgtttctggagtataaa------------acgtcttga--tggcttttagatttttctt-tagctggtgtagaagtttttcaccaatgcgcatctttatttgt-tgttaatgatcattctctcatcttaaacag
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AGGTATTTCTTCTTGCGGGAAGTAGAATTTGGCAATGATGGGGACTATTCAGAAGAACGCTTTATCAATATAGTGAATGCTCATCTTGCTAATACAATTGgtatttctacttaaattacctttgtttctgaaacatgtatatacaattcatgtgtgctgaaattgttatgccattttccttctttcttcacttggtgctccttgtttctgcctatgcatctttatgtgttaataactatctcactgtcttgaacag
upper sequence: LOC_Os03g11120.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA20G23250.1 (Glycine max), 5'ss of exon 8
AGGTACTTCTTCTTGCGGGAAGTGGAATTTGGCAATGACGGGGACTATTCAGAGGAACGCTTTATCAATATAGTCAATGCGCATCTTGCCAACACCATTGgtatttctactcaaagcacctttgtttctggagtataaaacgtcttgatggcttttagatttttctttagctggtgtagaagtttttcaccaatgcgcatctttatttgttgttaatgatcattctctcatcttaaacag
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AGATACTTCTTCCTCAGAGAGGTGGAATTTGGCAATGATGGAGACTATTCAGAGGAACGCTTCATCAATATTGTGAATGCACATCTTGCCAATACAATTGgtactt----tcaacctactttcattacttgta-acattcagtaacaaatattgatatgtatttccttcgctattttggcag----------------------------------------------------------
upper sequence: LOC_Os03g11120.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA10G43550.1 (Glycine max), 5'ss of exon 8
AGGTACTTCTTCTTGCGGGAAGTGGAATTTGGCAATGACGGGGACTATTCAGAGGAACGCTTTATCAATATAGTCAATGCGCATCTTGCCAACACCATTGgtatttctactcaaagcacctttgtttctggagtataa-aacgtcttgatggcttttagatttttctttagctggtgtagaagtttttcaccaatgcgcatctttatttgttgttaatgatcattctctcatcttaaacag
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AGATACTTCTTTGTCAGAGAGGTGGAATTCGGCAATGATGGAGACTATTCAGAGGAACGCTTCATCAATATTGTGAATGCACATCTTGCCAATACAATTGgtaccttcaaccttgctttcattacttgtagcattcagtaacaacatattgatttgtattccctccaatattttg-gcag-------------------------------------------------------------
upper sequence: LOC_Os03g11120.1 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G55400.1 (Arabidopsis thaliana), 5'ss of exon 7
AGGTACTTCTTCTTGCGGGAAGTGGAATTTGGCAATGACGGGGACTATTCAGAGGAACGCTTTATCAATATAGTCAATGCGCATCTTGCCAACACCATTGgtatttctactcaaagcacctttgtttctggagtataaaacgtcttgatggcttttagatttttctttagctggtgtagaagtttttcaccaatgcgcatctttatttgttgttaatgatcattctctcatcttaaacag
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AGGTATTTCTTCCTACGGGAGGTTGAATTTGGAAACGATGGGGACTATTCAGAAGACCGATTTATAAAAATCGTCAATGCACATCTCGCCAACACTATAGgt-ttcttactctacgaaaactaaatcttaagtagttgttcagccttttggttatttggtacagaacttgtt--tctgaaaaatgtttatcaatgcatttctct-tcag-------------------------------
upper sequence: LOC_Os03g11120.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv13s0019g00810.t01 (Vitis vinifera), 5'ss of exon 8
AGGTACTTCTTCTTGCGGGAAGTGGAATTTGGCAATGACGGGGACTATTCAGAGGAACGCTTTATCAATATAGTCAATGCGCATCTTGCCAACACCATTGgtatttctactcaaagcacctttgtttctggag--tataaaacgtcttgatggcttttagatttttctttagctggt-gtagaagtttttcaccaatg--cgcatcttta---tttgttgttaat------gatcattctctcatct----taaacag
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AGATACTTTTTCCTTAGGGAGGTGGAATTTGGCAATGATGGGGACTACTCGGAGGACCGCTTCATCAATATTGTCAATGCACATCTTGCCAACACAATTGgtatttctactttgtttttttttttttttctatcttctctaacgcctacttccccctttttccattaaggatttggttgctttgctttttcattcatgattggactctgaaggtagggtggcaatacataagatgacctttgtacctactctatgcagMapped 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|218481368|gb|FG954011.1|FG954011EST: AGAGGAACGCTTTATCAATATAGTCAATGCGCATCTTGCCAACACCATTG GAAACCTCCTCAATCGCACACTTGGGCTGCTAAAGAAGAATTGTAAATCCA
genomic: AGAGGAACGCTTTATCAATATAGTCAATGCGCATCTTGCCAACACCATTGgtatttctac ... tcttaaacagGAAACCTCCTCAATCGCACACTTGGGCTGCTAAAGAAGAATTGTAAATCCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGTACTTCTTCTTGCGGGAAGTGGAATTTGGCAATGACGGGGACTATTCAGAGGAACGCTTTATCAATATAGTCAATGCGCATCTTGCCAACACCATTGgtatttctactcaaagcacctttgtttctggagtataaaacgtcttgatggcttttagatttttctttagctggtgtagaagtttttcaccaatgcgcatctttatttgttgttaatgatcattctctcatcttaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA