1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' |
gttaacatcatttgacacaaagtttccgcttttatgtcacagtaatatagaacaaaacatgtttgcataatcgatgaaacttgtctaacctgaatgcatgcactcctattgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTCTTGCAGCCAAATTCTGATAAGCTCCAGTTCTTTTACGATGGACAAGGG
species | Oryza sativa |
transcript | LOC_Os03g13540.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|9865081|gb|AU100831.1|AU100831
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|86507744|gb|CI150377.1|CI150377
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88961554|gb|CI096833.1|CI096833
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|89164213|gb|CI101301.1|CI101301
genomic: TCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: CGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|86843487|gb|CI339554.1|CI339554
genomic: CGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88469569|gb|CI406840.1|CI406840
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: GCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88962486|gb|CI097638.1|CI097638
genomic: GCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|109711830|gb|CI029000.1|CI029000
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|89161610|gb|CI100770.1|CI100770
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATAAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88221310|gb|CI221266.1|CI221266
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88521762|gb|CI448429.1|CI448429
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATNGAGAGGAGTEST: gi|88283947|gb|CI405393.1|CI405393
genomic: TGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: GAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|86510427|gb|CI153060.1|CI153060
genomic: GAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|27576775|gb|CA999469.1|CA999469
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|89183251|gb|CI045816.1|CI045816
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|89168999|gb|CI020539.1|CI020539
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|86481343|gb|CI123976.1|CI123976
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88454936|gb|CI514177.1|CI514177
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: CGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|89165522|gb|CI102612.1|CI102612
genomic: CGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|89165032|gb|CI102120.1|CI102120
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|8527438|gb|AU092253.1|AU092253
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|58656722|gb|CK045402.1|CK045402
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: CTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGG-GCAAAAGCATGGAGAGGAGTEST: gi|87026542|gb|CI252496.1|CI252496
genomic: CTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88984674|gb|CI009447.1|CI009447
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88288260|gb|CI515404.1|CI515404
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|117234872|gb|CT847928.1|CT847928
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTTGGAGGTGGTTCAAAAGCATGGAGAGGAGEST: gi|27577370|gb|CB000065.1|CB000065
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGT-GGAGGTGGTTCAAAAGCATGGAGAGGAG
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|89164491|gb|CI101579.1|CI101579
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|3766780|gb|AU030890.1|AU030890
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|33660753|gb|CF291720.1|CF291720
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88509927|gb|CI437433.1|CI437433
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGANCACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|15850183|gb|BI798459.1|BI798459
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88515432|gb|CI443086.1|CI443086
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: CAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|58592688|gb|CF990996.1|CF990996
genomic: CAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|58691567|gb|CK080254.1|CK080254
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTEST: gi|86252869|gb|CI010351.1|CI010351
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTT
EST: ACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|88507580|gb|CI435086.1|CI435086
genomic: ACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: CATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTEST: gi|89165743|gb|CI102833.1|CI102833
genomic: CATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
EST: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAG TCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
genomic: TACATCAATGGGCACGACCACTGCCTGGAACACATTAGCAGCAGAGACAGgttaacatca ... attgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGT
ttgcataatcgatgaaacttgtctaacctgaatgcatgcactcctattgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTCTTGCAGCCAAATTCTGATAAGCTCCAGTTCTTTTACGATGGACAAGGG
gtctaac putative branch site (score: 53)
ctcctatt putative PPT
tattgtta 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gttaacatcatttgacacaaagtttccgcttttatgtcacagtaatatagaacaaaacatgtttgcataatcgatgaaacttgtctaacctgaatgcatgcactcctattgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTCTTGCAGCCAAATTCTGATAAGCTCCAGTTCTTTTACGATGGACAAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA