1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' |
...tacttgtagtgctcaattgttactcagtttaatgcattcttttttttttctagttttgttatattggtctcactgttgccttacgtttttgtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCAGGAATGAGAACAATAACAAGACAAATTGGGCTTGGCATGATCCAACAG
species | Oryza sativa |
transcript | LOC_Os02g43930.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|33797209|gb|CF324468.1|CF324468
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|27576325|gb|CA999019.1|CA999019
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|218489299|gb|FG965759.1|FG965759
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAAGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|58667485|gb|CK056171.1|CK056171
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: CCNNNNNNNCTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|58661241|gb|CK049921.1|CK049921
genomic: CC-AAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|58672684|gb|CK061370.1|CK061370
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|58677822|gb|CK066509.1|CK066509
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|58603501|gb|CK014029.1|CK014029
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: GTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|58687630|gb|CK076317.1|CK076317
genomic: GTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGEST: gi|58597866|gb|CK008394.1|CK008394
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGT-GGGGCAGCAGCAACTTGCCATGGTTGTCATGGTG
EST: AAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAACGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGEST: gi|58695486|gb|CK084173.1|CK084173
genomic: AAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAA-GGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTG
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|218485257|gb|FG950272.1|FG950272
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAAGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|29619928|gb|CB624940.1|CB624940
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|13420811|gb|AU174901.1|AU174901
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|29673001|gb|CB669276.1|CB669276
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|29683463|gb|CB679738.1|CB679738
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|218492553|gb|FG956401.1|FG956401
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|116875639|gb|EC366147.1|EC366147
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|33795773|gb|CF323756.1|CF323756
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGNGTTGTCATGGTGEST: gi|58601372|gb|CK011900.1|CK011900
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATG-GTTGTCATGGTG
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|3763799|gb|AU030551.1|AU030551
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: CGGAATGCTCTGTGCACAAAGT-NAAGGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGEST: gi|27577056|gb|CA999750.1|CA999750
genomic: CGGAATGCTCTGTGCACAAAGTGCAA-GGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTG
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCEST: gi|396941261|gb|HO188470.1|HO188470
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGC
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGG TAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGGTGEST: gi|58589635|gb|CF987943.1|CF987943
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCAT-GGTG
EST: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAACGG TACCGGATCCAAGAGTGGGGC
genomic: ACCAAAAAACTGTCTTTGTCACGGAATGCTCTGTGCACAAAGTGCAAGGGgtaagtatct ... gtaccttcagTAAAGGATCCAAGAGTGGGGC
ttttctagttttgttatattggtctcactgttgccttacgtttttgtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCAGGAATGAGAACAATAACAAGACAAATTGGGCTTGGCATGATCCAACAG
gccttac putative branch site (score: 168)
tttttgt CT-rich tract
tagttttgttatatt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| tacttgtagtgctcaattgttactcagtttaatgcattcttttttttttctagttttgttatattggtctcactgttgccttacgtttttgtaccttcagTAAAGGATCCAAGAGTGGGGCAGCAGCAACTTGCCATGGTTGTCATGGTGCAGGAATGAGAACAATAACAAGACAAATTGGGCTTGGCATGATCCAACAG
- - - tagtgct
- - - - - - - - -tgttact
- - - - - - - - - - - - - - - - tgcattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgcc