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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaatactttaactagccctatttttagtatttggtctcaaatattgactataatacatgctttcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG

Basic information

species Zea mays
transcript GRMZM5G807639_T03
intron # 2
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|211347968|gb|FL368837.1|FL368837
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211126388|gb|FL388997.1|FL388997
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211511665|gb|FL408091.1|FL408091
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211288450|gb|FL410952.1|FL410952
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211042919|gb|FL416910.1|FL416910
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211011070|gb|FL374939.1|FL374939
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGTTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211150258|gb|FL395029.1|FL395029
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211479894|gb|FL423794.1|FL423794
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211275057|gb|FL384329.1|FL384329
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCATTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211137577|gb|FL389523.1|FL389523
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGAC---
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|31357726|gb|CD442083.1|CD442083
EST:     GCTACTAAGGAGTCATACACATGTCATAAACTACAGCGGGGGACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211461966|gb|FL427684.1|FL427684
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|32862756|gb|CF002438.1|CF002438
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|30306817|gb|CD001490.1|CD001490
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211050734|gb|FL374465.1|FL374465
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAN                         CTTTGATTCCAGCTACTTCTCANTGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211518170|gb|FL380292.1|FL380292
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211494399|gb|FL426463.1|FL426463
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211418591|gb|FL407188.1|FL407188
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211490936|gb|FL402016.1|FL402016
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|31349005|gb|CD433362.1|CD433362
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211317708|gb|FL417584.1|FL417584
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCYCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211157939|gb|FL380349.1|FL380349
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|28187901|gb|CB179511.1|CB179511
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211437186|gb|FL418966.1|FL418966
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|37420219|gb|CF647798.1|CF647798
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|93017175|gb|EB642695.1|EB642695
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211305586|gb|FL419218.1|FL419218
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211002857|gb|FL384096.1|FL384096
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211142865|gb|FL377125.1|FL377125
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211530093|gb|FL390761.1|FL390761
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211235901|gb|FL373720.1|FL373720
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211431976|gb|FL418926.1|FL418926
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211063833|gb|FL423073.1|FL423073
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211441962|gb|FL416333.1|FL416333
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211094733|gb|FL379398.1|FL379398
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|67031724|gb|CO460473.1|CO460473
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
EST: gi|211539307|gb|FL400264.1|FL400264
EST:     GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAG                         CTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
genomic: GCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG

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: 87

ACTCTAGGGCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 214

ACTCTAGGGCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 203

ACTCTAGGGCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG


Block sizes: 48 (upstream exon), 45 (downstream exon)
Score: 119

ACTCTAGGGCTACTAAGGAGTCATACACATGTCAGAAACTACAGCAGTCAACTTTCAGgttaatactt ... tcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatttttagtatttggtctcaaatattgactataatacatgctttcttctccagCTTTGATTCCAGCTACTTCTCAATGCTCAAATCTGACAAG
                        tattgac  putative branch site (score: 119)
                                      catgctttcttctcc  putative PPT
                     aaatattgactataat  TA-rich tract