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' |
...cattgctgagcgcagtatggggtgatcttctgttttgattgattgtgtggatgtggattatagacagctaatccttagggttttttcgtgttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGATCTGTCCGTTACCACCTTCTCTCCGGATGGTCGCGTCTTCCAGGTTGA
species | Oryza sativa |
transcript | LOC_Os01g59600.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGT--- -A--AGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|218484300|gb|FG947697.1|FG947697
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|2442684|gb|C74455.1|C74455
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|84117381|gb|CD151148.1|CD151148
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88391006|gb|CI592914.1|CI592914
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|163919763|gb|EG714885.1|EG714885
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|58601557|gb|CK012085.1|CK012085
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|12622988|gb|AU173201.1|AU173201
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|58602516|gb|CK013044.1|CK013044
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88407414|gb|CI583872.1|CI583872
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88739654|gb|CI763162.1|CI763162
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88423678|gb|CI617030.1|CI617030
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|33657519|gb|CF280133.1|CF280133
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|29668731|gb|CB665006.1|CB665006
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|44665861|gb|CR279295.1|CR279295
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88391292|gb|CI595546.1|CI595546
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|87017761|gb|CI289894.1|CI289894
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88300705|gb|CI589697.1|CI589697
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|218496122|gb|FG967266.1|FG967266
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88400550|gb|CI595971.1|CI595971
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88738269|gb|CI761777.1|CI761777
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACCAGGATACEST: gi|88425566|gb|CI569290.1|CI569290
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCAC-AGGATAC
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88722475|gb|CI745985.1|CI745985
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|33686423|gb|CF314662.1|CF314662
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88393093|gb|CI616577.1|CI616577
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTACATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88343491|gb|CI621859.1|CI621859
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|2428359|gb|C72822.1|C72822
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88454340|gb|CI569912.1|CI569912
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88722486|gb|CI745996.1|CI745996
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|87008998|gb|CI304941.1|CI304941
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|66913113|gb|CX099961.1|CX099961
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAAGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAAAATAGTTGAAGATGAACAACATAGGCACAGGATACGEST: gi|88396858|gb|CI578007.1|CI578007
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGT--- -A--AGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88718828|gb|CI742338.1|CI742338
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88727129|gb|CI750784.1|CI750784
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88763617|gb|CI773064.1|CI773064
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|88420790|gb|CI564626.1|CI564626
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|569795|gb|D40644.1|D40644
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGEST: gi|33686716|gb|CF314955.1|CF314955
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
EST: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAG GAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
genomic: GGAGTGGATCGGGGATCTGCACGCAGGGGCCGATTTCTTCTCTTCGTAAGgtatgcccta ... ttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACG
tgtggatgtggattatagacagctaatccttagggttttttcgtgttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGATCTGTCCGTTACCACCTTCTCTCCGGATGGTCGCGTCTTCCAGGTTGA
agctaat putative branch site (score: 103)
ttttttcgtgttttct putative PPT
attataga 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| cattgctgagcgcagtatggggtgatcttctgttttgattgattgtgtggatgtggattatagacagctaatccttagggttttttcgtgttttcttcagGAGTAGATAACACAGAATAGTTGAAGATGAGCAGCATAGGCACAGGATACGATCTGTCCGTTACCACCTTCTCTCCGGATGGTCGCGTCTTCCAGGTTGA
- ttgctga
- - - - - - - - - - - - - -ttctgtt
- - - - - - - - - - - - - - - - - - - -tgattgt
- - - - - - - - - - - - - - - - - - - - - - - gtggatg