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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttatgattgcaatcttctgcataatgtttacagtatgcatagttttaccattgtcttattagaaggcttattactgacccatcatcctcttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCTTCAGAGTCAATGTCAAGCGATATAAACGGTAGCACAATTCTCTCGGTAC

Basic information

species Oryza sativa
transcript LOC_Os02g09060.1
intron # 11
splice site 3'
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|58680116|gb|CK068803.1|CK068803
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88838045|gb|CI372613.1|CI372613
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCCCCAAAATACCCTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|86483356|gb|CI125989.1|CI125989
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88548190|gb|CI476539.1|CI476539
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88554522|gb|CI484709.1|CI484709
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88218548|gb|CI218397.1|CI218397
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|86500028|gb|CI142661.1|CI142661
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88544584|gb|CI472696.1|CI472696
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88543118|gb|CI470494.1|CI470494
EST:     CATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: CATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88535090|gb|CI463864.1|CI463864
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88259444|gb|CI363737.1|CI363737
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|29678198|gb|CB674473.1|CB674473
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|40492104|gb|BX900098.1|BX900098
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|86881135|gb|CI339296.1|CI339296
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|86426354|gb|CI071451.1|CI071451
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|86412826|gb|CI067231.1|CI067231
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88527296|gb|CI455440.1|CI455440
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88531440|gb|CI459916.1|CI459916
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88275435|gb|CI395286.1|CI395286
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCCCCAAAATACC-T-GCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|89175817|gb|CI042838.1|CI042838
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88226693|gb|CI226609.1|CI226609
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88218295|gb|CI218144.1|CI218144
EST:     AAGCTGCCATTAGATTGAAAGATGTAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|86543524|gb|CI183730.1|CI183730
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|86495057|gb|CI137690.1|CI137690
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|88255261|gb|CI354085.1|CI354085
EST:     AAGCTGCCATTAGATTGAAAGATTAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|89165864|gb|CI102954.1|CI102954
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|87014873|gb|CI271472.1|CI271472
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|218484344|gb|FG954469.1|FG954469
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|86490088|gb|CI132721.1|CI132721
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|89164799|gb|CI101887.1|CI101887
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|86492775|gb|CI135408.1|CI135408
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
EST: gi|86529860|gb|CI170066.1|CI170066
EST:     AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAG                         CTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT
genomic: AAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCT

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: 15 (upstream exon), 61 (downstream exon)
Score: 1

GGAACAAGCTGCCATTAGATTGAAAGATGAAAAAATTGAGAAGCTGGAGGAGGAGgtcagtatgt ... cttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCTTCAGAGTCAATGTCAAGCGATATAAACGGTAGCACAATTCTCTCGGTAC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaccattgtcttattagaaggcttattactgacccatcatcctcttgtgacagCTAAGGGATTTGATAGCCCATTTTGAGCGCCAAAATACCGTGGCAGAAGCTTCAGAGTCAATGTCAAGCGATATAAACGGTAGCACAATTCTCTCGGTAC
                            tactgac  putative branch site (score: 1)
                                  cccatcatcctctt  CT-rich tract
            ttattagaa  TA-rich tract