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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAAGTAGGAGATCCTAAGGAGATGATATGTCAAGCAGCTGAGGAATCAAAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttgaaatatcgtggtttctttatagattatagttgatagattatattttctgcatgaacaatcaaaatagaattatatgttcgatgaaaaact...

Basic information

species Oryza sativa
transcript LOC_Os01g32780.1
intron # 3
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|86854099|gb|CI252090.1|CI252090
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGGAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88554825|gb|CI485033.1|CI485033
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88478954|gb|CI416225.1|CI416225
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCACCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|86531544|gb|CI171750.1|CI171750
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88555832|gb|CI486118.1|CI486118
EST:     GTTGGGAGTCACAGCC-TGGAACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: GTTGGGAGTCACAGCCGTGG-ACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88514000|gb|CI441506.1|CI441506
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|29681523|gb|CB677798.1|CB677798
EST:     CGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: CGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|14191497|gb|AU183708.1|AU183708
EST:     TTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTNTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: TTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|58030620|gb|CX728163.1|CX728163
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|86508009|gb|CI150642.1|CI150642
EST:     ACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: ACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88481452|gb|CI418723.1|CI418723
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88529892|gb|CI458250.1|CI458250
EST:     CGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: CGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|218783418|gb|GE329470.1|GE329470
EST:     AAGGTTGATTTACTGGTCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATC
EST: gi|88205933|gb|CI205782.1|CI205782
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88529634|gb|CI457970.1|CI457970
EST:     TTGGGAGTCACANCCGTGGACCTGTACAAAG                         GTTTTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: TTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|218485522|gb|FG954089.1|FG954089
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATATCGAAGTGCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCAT-TCGAAGTGCC
EST: gi|86512186|gb|CI154819.1|CI154819
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|86253249|gb|CI058174.1|CI058174
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88239880|gb|CI239042.1|CI239042
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88543842|gb|CI473884.1|CI473884
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88537466|gb|CI464415.1|CI464415
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|13807126|gb|AU181815.1|AU181815
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTNTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|9865563|gb|AU101313.1|AU101313
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|87013169|gb|CI281683.1|CI281683
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|218783473|gb|GE329525.1|GE329525
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATC
EST: gi|88545273|gb|CI474822.1|CI474822
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88545980|gb|CI475586.1|CI475586
EST:     ATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: ATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|38565622|gb|CK085075.1|CK085075
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88471616|gb|CI408887.1|CI408887
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTAGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|86824608|gb|CI264930.1|CI264930
EST:     AAGGTTGGTTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|86855742|gb|CI269069.1|CI269069
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAT                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88526382|gb|CI453201.1|CI453201
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88551228|gb|CI481266.1|CI481266
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|86512450|gb|CI155083.1|CI155083
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|10930789|gb|AU161063.1|AU161063
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|88540143|gb|CI470163.1|CI470163
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|29681556|gb|CB677831.1|CB677831
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
EST: gi|10611759|gb|AU108455.1|AU108455
EST:     TTTGATTTTACTTGATCGTTTGGAGTCACAGCCGTGGAACCTGTACAAAG                         GTTGTTTCTTGGAAGTGTCAGGCAATTACTGTATGCATCATTCGAAGTGNC
genomic: -TTGA-TTTAC-TGATCGTTGGGAGTCACAGCCGTGG-ACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCA-GCAATTACTGTATGCATCATTCGAAGTG-C
EST: gi|88206883|gb|CI205199.1|CI205199
EST:     AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAG                         GTTGTTTCTTGGGAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC
genomic: AAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCC

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: 36 (upstream exon), 40 (downstream exon)
Score: 1

TCAAAGTAGGAGATCCTAAGGAGATGATATGTCAAGCAGCTGAGGAATCAAAGGTTGATTTACTGATCGTTGGGAGTCACAGCCGTGGACCTGTACAAAGgtatagtttg ... gctgctgcagGTTGTTTCTTGGAAGTGTCAGCAATTACTGTATGCATCATTCGAAGTGCCCAGTTCTTGTTGTGAAGAAGCAGGAGTAAATAAGCTTTCCGAATCTCAAT




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