1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' |
...cccttcattcaaaaaaataattagtttatcatgttttttttatctgttttgagtgttgactgtagtgtttcaccttttccatcttactctctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTAGGAATGAGGAATATAATGCGACAGATAGGACTAGGCATGATTCAACAT
species | Oryza sativa |
transcript | LOC_Os04g46390.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29683515|gb|CB679790.1|CB679790
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29645124|gb|CB650131.1|CB650131
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|14714017|gb|AU197958.1|AU197958
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29643291|gb|CB648298.1|CB648298
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29614042|gb|CB619055.1|CB619055
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29643236|gb|CB648243.1|CB648243
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|33654740|gb|CF277354.1|CF277354
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTAATGGTTGTCATGGTGEST: gi|29678572|gb|CB674847.1|CB674847
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTA-TGGTTGTCATGGTG
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29670817|gb|CB667092.1|CB667092
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|186893157|gb|FG124842.1|FG124842
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGGAAGGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29657304|gb|CB653579.1|CB653579
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCCTTATCACGAAATATTCTGTGCCCCAAGTGCAAAGG AAAAGGGACCAEST: gi|33657288|gb|CF279902.1|CF279902
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCA
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTAATGGTTGTCATGGTGEST: gi|88734728|gb|CI758236.1|CI758236
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTA-TGGTTGTCATGGTG
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|33657059|gb|CF279673.1|CF279673
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCCTATGGTTGTCATGGTGEST: gi|29678521|gb|CB674796.1|CB674796
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGC-TATGGTTGTCATGGTG
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29680639|gb|CB676914.1|CB676914
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29663531|gb|CB659806.1|CB659806
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29639999|gb|CB645008.1|CB645008
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|38476212|gb|CF960345.1|CF960345
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: TCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTAGTGGTTGTCATGGTGEST: gi|29644137|gb|CB649144.1|CB649144
genomic: TCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTA-TGGTTGTCATGGTG
EST: GAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|88762189|gb|CI771745.1|CI771745
genomic: GAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTEST: gi|29668764|gb|CB665039.1|CB665039
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
EST: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGG AAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
genomic: ATGAAGAAACTATCATTATCACGAAATATTCTGTGCCCAAAGTGCAAAGGgtaagccttt ... ctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGT
gttttgagtgttgactgtagtgtttcaccttttccatcttactctctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTAGGAATGAGGAATATAATGCGACAGATAGGACTAGGCATGATTCAACAT
atcttac putative branch site (score: 3)
tttcaccttttccatc CT-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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| cccttcattcaaaaaaataattagtttatcatgttttttttatctgttttgagtgttgactgtagtgtttcaccttttccatcttactctctgctttcagAAAAGGGACCAAATCTGAGGCTCCAGCAACATGCTATGGTTGTCATGGTGTAGGAATGAGGAATATAATGCGACAGATAGGACTAGGCATGATTCAACAT
cccttca
- - - - -caaaaaa
- - - - - - - - - - - - - -atcatgt
- - - - - - - - - - - - - - - - - - - - - - tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgactg