Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcccttttaattttggtcgacaacgaaacttcaaagaactgcatgaatatgcctaaatgaatcatgtgatgaattatcctgttgccgttccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTAAGTGTCATGCATCCAGAAGCCAACAGATCTGTTGCGCCGGTTGAGATGT

Basic information

species Zea mays
transcript GRMZM2G090747_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G090747_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g58740.2 (Oryza sativa), 3'ss of exon 3
gtatgcccttttaattttggtc----gacaacgaaacttcaaagaac--tgca--tgaatatgcctaaatgaatcatgtgatgaattatcctgttgccgttccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTAAGTGTCATGCATCCAGAAGCCAACAGATCTGTTGCGCCGGTTGAGATGT
|| |||||||     || | |      | | | | |  | |   ||   ||||  | |  |||     |||   |||||  | ||||    ||||  | ||  ||| |||||||||||||||||  |||| |||||||| || || ||||||||||||||||| || |||||||| |||||||||||||||||||| |||||||||||||
gtttgcccttccgtcttggtttctgaaatatcaataactgaggaaatgatgcaccttatgatggtctgatgg-ccatgtacttaatt---ttgttatcattttattccagGGTGTCTCTGCAGTCAATGCATTTTATGAACTCCTGAGTCAGGATAGCTTAAGCGTAATGCATCCTGAAGCCAACAGATCTGTTGCACCGGTTGAGATGT
















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|211096517|gb|FL457297.1|FL457297
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|211058312|gb|FL097919.1|FL097919
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|211121221|gb|FL444218.1|FL444218
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|37361394|gb|CF602683.1|CF602683
EST:     AAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCNGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|5714325|gb|AI944310.1|AI944310
EST:     GTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: GTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|6056579|gb|AW090984.1|AW090984
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|88749792|gb|DY533933.1|DY533933
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|5739676|gb|AI947471.1|AI947471
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|148950390|gb|EC895955.2|EC895955
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|6020615|gb|AW065648.1|AW065648
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|67026682|gb|CO455431.1|CO455431
EST:     AATTGACATTAGAAATGGGTGATAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|5847455|gb|AW000534.1|AW000534
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|9953299|gb|BE639882.1|BE639882
EST:     AATTGACCTTAGAAATGGGTGATAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|60396115|gb|DN228984.1|DN228984
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|71445293|gb|DR826343.1|DR826343
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|149111430|gb|EE294933.2|EE294933
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTTTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|5268853|gb|AI770817.1|AI770817
EST:     AATTGACATTAGAAATGGGTGATAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|91878499|gb|EB408456.1|EB408456
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|5819252|gb|AI987458.1|AI987458
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|148964160|gb|EE015327.2|EE015327
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|211058311|gb|FL097918.1|FL097918
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|44901413|gb|CK827958.1|CK827958
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|84908450|gb|DW404328.1|DW404328
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|211058310|gb|FL097917.1|FL097917
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|32931103|gb|CF035915.1|CF035915
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|6020445|gb|AW065373.1|AW065373
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|5525818|gb|AI861711.1|AI861711
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|71320116|gb|DR796811.1|DR796811
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|211058313|gb|FL097920.1|FL097920
EST:     ATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: ATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|6056476|gb|AW090866.1|AW090866
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|8665479|gb|BE186295.1|BE186295
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|5714311|gb|AI944296.1|AI944296
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|86474540|gb|DY240910.1|DY240910
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|9461511|gb|BE453769.1|BE453769
EST:     AATTGACATTAGAAATGGGTGATAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|71772034|gb|DR969971.1|DR969971
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|6828044|gb|AW331687.1|AW331687
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|6020606|gb|AW065639.1|AW065639
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|60397836|gb|DN230652.1|DN230652
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|5901384|gb|AW042484.1|AW042484
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|60353492|gb|DN220465.1|DN220465
EST:     AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTTTTAGTCAGGATAGCTTA
genomic: AATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
EST: gi|211058314|gb|FL097921.1|FL097921
EST:     CATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAG                         GGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA
genomic: CATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTA

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 313

ATTGTTGAAAGGTCGTAATGCATGGTATGGGCAGAAGTTAGCTAAAGGTGAATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTAAGTGTCATGCATCCAGAAGCCAACAGATCTGTTGCGCCGGTTGAGATGT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 111

ATTGTTGAAAGGTCGTAATGCATGGTATGGGCAGAAGTTAGCTAAAGGTGAATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTAAGTGTCATGCATCCAGAAGCCAACAGATCTGTTGCGCCGGTTGAGATGT


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 159

ATTGTTGAAAGGTCGTAATGCATGGTATGGGCAGAAGTTAGCTAAAGGTGAATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTAAGTGTCATGCATCCAGAAGCCAACAGATCTGTTGCGCCGGTTGAGATGT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 251

ATTGTTGAAAGGTCGTAATGCATGGTATGGGCAGAAGTTAGCTAAAGGTGAATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgccctt ... tccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTAAGTGTCATGCATCCAGAAGCCAACAGATCTGTTGCGCCGGTTGAGATGT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatatgcctaaatgaatcatgtgatgaattatcctgttgccgttccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTAAGTGTCATGCATCCAGAAGCCAACAGATCTGTTGCGCCGGTTGAGATGT
       gcctaaa  putative branch site (score: 251)
                                            ttccatttc  putative PPT
          taaatgaat  TA-rich tract
















Putative cis-regulatory sequences

 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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcccttttaattttggtcgacaacgaaacttcaaagaactgcatgaatatgcctaaatgaatcatgtgatgaattatcctgttgccgttccatttcagGGTGTCTCTGCAGTTGATGCGTTTTATGAGCTTCTTAGTCAGGATAGCTTAAGTGTCATGCATCCAGAAGCCAACAGATCTGTTGCGCCGGTTGAGATGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG