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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttttttcctctcagcaagcttattattgttatattcttcccaatctccaattgcattcgattgtttcctttggttctgtatttattttttaaagaagttcataaaccttaataatatgacaggtacctaagctaactcttttgcag

Basic information

species Zea mays
transcript GRMZM2G158261_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158261_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os03g17920.3 (Oryza sativa), 5'ss of exon 2
ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttttttcctctcagcaagcttattattgttatattcttcccaatctccaattgcattcgattgtttcctttggttctgtatttattttttaaagaagttcataaaccttaataatatgacaggtacctaagctaactcttttgcag
||||| || ||||||||||||| ||||||||||||||||| |||   |||  | | | || || |     ||  | || ||||| ||  |   ||| |      |||    |||||||||||      |  ||  |     | | |      || |  ||  ||  ||                              
ATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAGgtagctctat-ccactgattgtact-gtcatagttatcttgctt--aattttttgg-gcaacacattgtttccttca----taaatgaagaccatgatg----ctatgatgctctattttacag---------------------------
















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|211188055|gb|FK976790.1|FK976790
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|33942227|gb|CF348827.1|CF348827
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|33942227|gb|CF348827.1|CF348827
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|211188058|gb|FK976793.1|FK976793
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211185662|gb|FK976786.1|FK976786
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211185663|gb|FK976787.1|FK976787
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGC-ATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|50333301|gb|CO528427.1|CO528427
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|50333301|gb|CO528427.1|CO528427
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|211185661|gb|FK976785.1|FK976785
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|5268759|gb|AI770723.1|AI770723
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|5268759|gb|AI770723.1|AI770723
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|211185658|gb|FK976782.1|FK976782
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211185656|gb|FK976780.1|FK976780
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211185660|gb|FK976784.1|FK976784
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|211185660|gb|FK976784.1|FK976784
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|211185657|gb|FK976781.1|FK976781
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211183259|gb|FK976773.1|FK976773
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211188059|gb|FK976794.1|FK976794
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211185650|gb|FK976774.1|FK976774
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211185652|gb|FK976776.1|FK976776
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211185651|gb|FK976775.1|FK976775
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGNNGGNATATCATCGNTTTCCTTGGNAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211185654|gb|FK976778.1|FK976778
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|76293168|gb|DV032736.1|DV032736
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|76293168|gb|DV032736.1|DV032736
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|76017214|gb|DT944384.1|DT944384
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|76017214|gb|DT944384.1|DT944384
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|211188057|gb|FK976792.1|FK976792
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|32909407|gb|CF014219.1|CF014219
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGGG                        
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT--Ggtgtaatttt ... tcttttgca
EST: gi|58029903|gb|CX725330.1|CX725330
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|58029903|gb|CX725330.1|CX725330
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGG                         T
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCT-Ggtgtaatttt ... tcttttgcag-
EST: gi|211185655|gb|FK976779.1|FK976779
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211188054|gb|FK976789.1|FK976789
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTT
EST: gi|211188056|gb|FK976791.1|FK976791
EST:     ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG                         GTGGATGGGTCTAAGTTGGTATATCATCG
genomic: ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagG-G-ATGGGTCTAAGTTGGTATATCATCG

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: 45 (upstream exon), 48 (downstream exon)
Score: 65

ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTTGCGCCGTATTTGCTGGAAGTGCTCTACGAGGATGATGACATG


Block sizes: 45 (upstream exon), 36 (downstream exon)
Score: 34

ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTTGCGCCGTATTTGCTGGAAGTGCTCTACGAGGATGATGACATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 36

ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTTGCGCCGTATTTGCTGGAAGTGCTCTACGAGGATGATGACATG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 33

ATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGgtgtaatttt ... tcttttgcagGGATGGGTCTAAGTTGGTATATCATCGTTTTCCTTGGCAGGAGCCATTTGCGCCGTATTTGCTGGAAGTGCTCTACGAGGATGATGACATG