Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACGGCATCTACCATTGAGCGCTATCAGCTTGGATTCTTGATCTCCGCCCTTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttttttaccatttttctgctttctttatgttacgatttttgcttttcacctaactctacttgcattgcatgaaatttaagcttgataagtaaa...

Basic information

species Oryza sativa
transcript LOC_Os11g44940.1
intron # 2
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|88214665|gb|CI214514.1|CI214514
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|87026279|gb|CI280190.1|CI280190
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|86429364|gb|CI076045.1|CI076045
EST:     CCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: CCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88977169|gb|CI024906.1|CI024906
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88955503|gb|CI091595.1|CI091595
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88982327|gb|CI027888.1|CI027888
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|89163745|gb|CI100635.1|CI100635
EST:     TGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|86416509|gb|CI030520.1|CI030520
EST:     TTGGTTTTGACCTTTCCGACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88199222|gb|CI199072.1|CI199072
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|89180808|gb|CI009716.1|CI009716
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|87029967|gb|CI267980.1|CI267980
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88206723|gb|CI206572.1|CI206572
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88468854|gb|CI696856.1|CI696856
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88209064|gb|CI208913.1|CI208913
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|86540581|gb|CI180787.1|CI180787
EST:     TTTCACGCCCATGACCACTGAG                         ATGATAATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88216445|gb|CI216294.1|CI216294
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|86528202|gb|CI168408.1|CI168408
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|87016910|gb|CI284244.1|CI284244
EST:     TCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88214611|gb|CI214460.1|CI214460
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|86531155|gb|CI171361.1|CI171361
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|13420404|gb|AU174494.1|AU174494
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|86259338|gb|CI008015.1|CI008015
EST:     TTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|86601370|gb|CI251744.1|CI251744
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCCCTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|87025139|gb|CI263647.1|CI263647
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88215856|gb|CI215705.1|CI215705
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|87019767|gb|CI284453.1|CI284453
EST:     TGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|88239856|gb|CI239018.1|CI239018
EST:     GTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|86508359|gb|CI150992.1|CI150992
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|5038677|gb|AU070787.1|AU070787
EST:     TGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGNACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGGCAGCG
genomic: TGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATG-ACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGG-CAGCG
EST: gi|86529976|gb|CI170182.1|CI170182
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|86905159|gb|CI283123.1|CI283123
EST:     CAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: CAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|86601410|gb|CI253738.1|CI253738
EST:     TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|11025978|gb|AU162579.1|AU162579
EST:     TTGGTTTTGACCTTTCNAACNTTCTGGTTTTCACGCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
genomic: TTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG
EST: gi|2312193|gb|C28348.1|C28348
EST:     CCTTCTGG-TTTAACNCCCATGACCACTGAG                         ATGATGATGAGGCGGCACAAGATCGANAAAGACCTCGGCATCGGCAGCGAG
genomic: CCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 63 (downstream exon)
Score: 15

GACGGCATCTACCATTGAGCGCTATCAGCTTGGATTCTTGATCTCCGCCCTTGGTTTTGACCTTTCCAACCTTCTGGTTTTCACGCCCATGACCACTGAGgtaaatcttt ... ctttctacagATGATGATGAGGCGGCACAAGATCGAGAAAGACCTCGGCATCGGCAGCGAGGTCGGGTTTTCGAAGAACGCGGAGGTGGCGAGGACGAACCCAACGCTGG




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