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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttgtactttgattttcagtgttgttgggataaggctttgttgttgttgtattttgtactatatcatcatgttccttaactatttgcctttgattttcagTGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTACGTGCTAACACCTGGGCAAGGTCGTCGTCCTTGACCTCTCCTGCAAGTG

Basic information

species Glycine max
transcript GLYMA16G27280.1
intron # 1
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|5753476|gb|AI960763.1|AI960763
EST:     TGTGAAATGGAGCCGTTTGCTTAGAGCTGCTTCTTCTGATCTTTGAATCT                         TGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTA
genomic: TGTGAAATGGAGCCGTTTGCTTAGAGCTGCTTCTTCTGATCTTTGAATCTgtaagtgctt ... tgattttcagTGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTA
EST: gi|7691679|gb|AW759802.1|AW759802
EST:     CTGATCTTTGAATCT                         TGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTA
genomic: CTGATCTTTGAATCTgtaagtgctt ... tgattttcagTGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTA
EST: gi|151396666|gb|EV266539.1|EV266539
EST:     GTGAAATGGAGCCGTTTGCTCAGAGCTGCTTCTTCTGATCTTTGAATCT                         TGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTA
genomic: GTGAAATGGAGCCGTTTGCTTAGAGCTGCTTCTTCTGATCTTTGAATCTgtaagtgctt ... tgattttcagTGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTA
EST: gi|209702336|gb|BW656309.1|BW656309
EST:     GTGAAATGGAGCCGTTTGCTTAGAGCTGCTTCTTCTGATCTTTGAATCT                         TGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTA
genomic: GTGAAATGGAGCCGTTTGCTTAGAGCTGCTTCTTCTGATCTTTGAATCTgtaagtgctt ... tgattttcagTGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTA
EST: gi|207831568|gb|GD802574.1|GD802574
EST:     GTGAAATGGAGCCGTTTGCTTAGAGCTGCTTCTTCTGATCTTTGAATCT                         TGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTA
genomic: GTGAAATGGAGCCGTTTGCTTAGAGCTGCTTCTTCTGATCTTTGAATCTgtaagtgctt ... tgattttcagTGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgtattttgtactatatcatcatgttccttaactatttgcctttgattttcagTGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTACGTGCTAACACCTGGGCAAGGTCGTCGTCCTTGACCTCTCCTGCAAGTG
                                     tttgccttt  CT-rich tract
     attttgtactatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgtactttgattttcagtgttgttgggataaggctttgttgttgttgtattttgtactatatcatcatgttccttaactatttgcctttgattttcagTGATCTAGATATCTAGATACAGAATTGGAAATGGATTCAAATGGGAGCCTACGTGCTAACACCTGGGCAAGGTCGTCGTCCTTGACCTCTCCTGCAAGTG

- - - - - - - ttcagtg
- - - - - - - - - - gttgttg
- - - - - - - - - - - tgttggg
- - - - - - - - - - - - - - - - -ggctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgcctt