1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' | 8 5' 3' | 9 5' 3' | 10 5' 3' | 11 5' 3' |
gtatcacagtcacacacaactctagtgttcttggcaaacctatcatgtatcctttcctcaatcgaaatgctcccataagttgtcaactttagcttccttgcaaaagcctttttagttgtgtatgtagttcttctctcgtagcccatacacgcgagctcgttgactcaggttttatgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG
species | Oryza sativa |
transcript | LOC_Os07g01760.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|58611970|gb|CK039682.1|CK039682
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: GCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTGCGGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|29614592|gb|CB619605.1|CB619605
genomic: GCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|29684690|gb|CB680965.1|CB680965
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: GCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCAGGTGGACTAA GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGGCGCCGEST: gi|58589507|gb|CF987815.1|CF987815
genomic: GCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCC-GGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|29616796|gb|CB621808.1|CB621808
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|33381143|gb|CF196486.1|CF196486
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|29615352|gb|CB620364.1|CB620364
genomic: CATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|29615840|gb|CB620852.1|CB620852
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|87005459|gb|CI285681.1|CI285681
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|58693367|gb|CK082054.1|CK082054
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|29676307|gb|CB672582.1|CB672582
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGAGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|29616434|gb|CB621446.1|CB621446
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|29614424|gb|CB619437.1|CB619437
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|29636374|gb|CB641383.1|CB641383
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|58693563|gb|CK082250.1|CK082250
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|58687854|gb|CK076541.1|CK076541
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|58694270|gb|CK082957.1|CK082957
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|29614163|gb|CB619176.1|CB619176
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|38477834|gb|CF961967.1|CF961967
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CG-CATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGEST: gi|58593995|gb|CF992303.1|CF992303
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
EST: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAG GTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
genomic: CGCCATCGCGCGGGCCAAGCACTACCTCGCCATGGCACCCGGTGGACTAGgtatcacagt ... atgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCG
tcttctctcgtagcccatacacgcgagctcgttgactcaggttttatgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG
cgttgac putative branch site (score: 267)
ttttatgtaat TA-rich tract
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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtatcacagtcacacacaactctagtgttcttggcaaacctatcatgtatcctttcctcaatcgaaatgctcccataagttgtcaactttagcttccttgcaaaagcctttttagttgtgtatgtagttcttctctcgtagcccatacacgcgagctcgttgactcaggttttatgtaatcagGTGCTTACAGTGATTCCCGAGGTATCCCTGGTATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG