1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' |
...tgttgttgtgttgccacatacatgcccttaagcaactattttctgtgataaccgcaagtttgtttgtttttaaaacctttctttgttttaggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCAGCTCGTGCACGAAGCTACAGCCGATCACCTCCACCTCCTCGTGAGCGA
species | Oryza sativa |
transcript | LOC_Os02g39720.4 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|87031507|gb|CI263880.1|CI263880
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|86495002|gb|CI137635.1|CI137635
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|86906238|gb|CI320169.1|CI320169
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|32948206|gb|BP184778.1|BP184778
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|32948206|gb|BP184778.1|BP184778
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|32948206|gb|BP184778.1|BP184778
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|32948206|gb|BP184778.1|BP184778
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|32948206|gb|BP184778.1|BP184778
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|32948206|gb|BP184778.1|BP184778
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|32948206|gb|BP184778.1|BP184778
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|33692937|gb|CF321176.1|CF321176
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGGAGTTACAGEST: gi|86545716|gb|CI185922.1|CI185922
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGT------AG--A-AGgtaatgtaaa ... gg
EST: ATTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGGAGTTACAGEST: gi|88206414|gb|CI206263.1|CI206263
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGT------AG--A-AGgtaatgtaaa ... gg
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGGAGTTACAGEST: gi|88210718|gb|CI210567.1|CI210567
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGT------AG--A-AGgtaatgtaaa ... gg
EST: AGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|29643918|gb|CB648925.1|CB648925
genomic: AGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|87034991|gb|CI189615.1|CI189615
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|86531202|gb|CI171408.1|CI171408
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGGAGTTACAGEST: gi|88206373|gb|CI206222.1|CI206222
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGT------AG--A-AGgtaatgtaaa ... gg
EST: ATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGTTACAGCAGGTCGCCACCACCEST: gi|29658266|gb|CB654541.1|CB654541
genomic: ATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|87018220|gb|CI265512.1|CI265512
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGGAGTTACAGEST: gi|86435370|gb|CI106603.1|CI106603
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGT------AG--A-AGgtaatgtaaa ... gg
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|33657441|gb|CF280055.1|CF280055
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: GCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|87033033|gb|CI187657.1|CI187657
genomic: GCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: CGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGCAGAAGGAGTTACAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACEST: gi|38475200|gb|CF959333.1|CF959333
genomic: CGCAGCCCAAGATACCGGAGGAGCCCAAGCTAT----G--GTAG--A-AGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCAC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|88852217|gb|CI373985.1|CI373985
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: GTCGCAGCCGCAGCCCAAGATAGCCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|29660883|gb|CB657158.1|CB657158
genomic: GTCGCAGCCGCAGCCCAAGATA-CCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|29660883|gb|CB657158.1|CB657158
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|29660883|gb|CB657158.1|CB657158
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|29660883|gb|CB657158.1|CB657158
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|29660883|gb|CB657158.1|CB657158
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|29660883|gb|CB657158.1|CB657158
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|29660883|gb|CB657158.1|CB657158
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG GEST: gi|38482929|gb|CF966731.1|CF966731
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacag-
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|325493520|gb|JG458044.1|JG458044
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGEST: gi|88201589|gb|CI201944.1|CI201944
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCG
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|33664155|gb|CF295122.1|CF295122
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGTTACAGCAGGTCGCCACCACCEST: gi|86596340|gb|CI268640.1|CI268640
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|89168547|gb|CI038901.1|CI038901
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|86524080|gb|CI164286.1|CI164286
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCEST: gi|88217821|gb|CI217670.1|CI217670
genomic: AGTCGCAGCCGCAGCCCAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
EST: CAAGATACCGGAGGAGCCCAAGCTATGGTAGAAG CCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCCCCACC
genomic: CAAGATACCGGAGGAGCCCAAGCTATGGTAGAAGgtaatgtaaa ... ggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACC
tgataaccgcaagtttgtttgtttttaaaacctttctttgttttaggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCAGCTCGTGCACGAAGCTACAGCCGATCACCTCCACCTCCTCGTGAGCGA
tgataac putative branch site (score: 52)
tttgtttgtttttaaa 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| tgttgttgtgttgccacatacatgcccttaagcaactattttctgtgataaccgcaagtttgtttgtttttaaaacctttctttgttttaggagttacagCCCACGGGATCGTTCTCCAAAGAGGCGCAGCTACAGCAGGTCGCCACCACCAGCTCGTGCACGAAGCTACAGCCGATCACCTCCACCTCCTCGTGAGCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
tgttgtt
- - - - tgttgcc
- - - - - - - - - tacatgc
- - - - - - - - - - - - - - -aagcaac
- - - - - - - - - - - - - - - - - - - - - -tgtgata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgt