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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctgttctgttaccacttaccaatcacttcattcgtttctagttgtcaaatgcatcaaagttattgttttccttttttctttttctttttttgtacgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAGCTTCAACTAGGTGCTCCGTGGCCCCTACCACCCCTTGAAGCGACTGCCA

Basic information

species Glycine max
transcript GLYMA20G34960.1
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|20812513|gb|BQ296991.1|BQ296991
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|120530629|gb|EH258762.1|EH258762
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|23728495|gb|BU762303.1|BU762303
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|15813996|gb|BI786271.1|BI786271
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|14008618|gb|BG725222.1|BG725222
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|20498481|gb|BQ273411.1|BQ273411
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|23057257|gb|BU577932.1|BU577932
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|13562464|gb|BG550684.1|BG550684
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|31474640|gb|CD416668.1|CD416668
EST:     TGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: TGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|151403502|gb|EV273312.1|EV273312
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|58016590|gb|CX703332.1|CX703332
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|120530496|gb|EH258629.1|EH258629
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|33389199|gb|CA852406.1|CA852406
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|7283325|gb|AW595933.1|AW595933
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|20498880|gb|BQ273810.1|BQ273810
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|13481231|gb|BG510574.1|BG510574
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGA
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGA
EST: gi|26269573|gb|CA820636.1|CA820636
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATA
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATA
EST: gi|120491718|gb|EH219885.1|EH219885
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|12489972|gb|BG043493.1|BG043493
EST:     GCCGTCCTGGTCCTCCCATANGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|120530540|gb|EH258673.1|EH258673
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
EST: gi|151397186|gb|EV267059.1|EV267059
EST:     GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAG                         GTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG
genomic: GCCGTCCTGGTCCTCCCATAGGAAGACTCCTTCCTATTACTCTTGGACAGgttctgttct ... acgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcatcaaagttattgttttccttttttctttttctttttttgtacgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAGCTTCAACTAGGTGCTCCGTGGCCCCTACCACCCCTTGAAGCGACTGCCA
           ttattgttttcctttt  CT-rich tract
                       ttttttctttttcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttctgttctgttaccacttaccaatcacttcattcgtttctagttgtcaaatgcatcaaagttattgttttccttttttctttttctttttttgtacgttgatagGTTTTTCAACGAATTGACATCTTGAGCAAAGATTTTGATAACATAGTGGAGCTTCAACTAGGTGCTCCGTGGCCCCTACCACCCCTTGAAGCGACTGCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC