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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtgggtggcctgtggtgtctattaattagcatagcattacttagtagttggtatgctttgcacttatgattggcggaatggtggttttttgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGAACTTTGTCCTTTGAATATCTTGCCACCTTGTCGTAGCAGACTCTTCAAA

Basic information

species Glycine max
transcript GLYMA02G03080.1
intron # 7
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|9901166|gb|BE610134.1|BE610134
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|51338002|gb|CO981868.1|CO981868
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|213593195|gb|DB975675.1|DB975675
EST:     TATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: TATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|151406873|gb|EV276688.1|EV276688
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|9819785|gb|BE555298.1|BE555298
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|13482427|gb|BG511770.1|BG511770
EST:     GTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: GTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|58016185|gb|CX702927.1|CX702927
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|7233061|gb|AW568412.1|AW568412
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|15199292|gb|BI423757.1|BI423757
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|254323000|gb|GR839913.1|GR839913
EST:     TCTATGTTAAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: TCTATGTT-AAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|22540994|gb|BU090837.1|BU090837
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAGTTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|13787399|gb|BG649991.1|BG649991
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|58019317|gb|CX706059.1|CX706059
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|151406023|gb|EV275838.1|EV275838
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|6666275|gb|AW277734.1|AW277734
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|27427278|gb|CA938798.1|CA938798
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
EST: gi|58016174|gb|CX702916.1|CX702916
EST:     ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG                         ACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA
genomic: ATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAGgtattgattt ... tgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagttggtatgctttgcacttatgattggcggaatggtggttttttgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGAACTTTGTCCTTTGAATATCTTGCCACCTTGTCGTAGCAGACTCTTCAAA
                                        ttttttgt  CT-rich tract
                                        ttttttgtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtgggtggcctgtggtgtctattaattagcatagcattacttagtagttggtatgctttgcacttatgattggcggaatggtggttttttgtattgcagACATTTGGTGCTGATAGGAAAGAAGTGAGAGCTACTTTACCATAATTCAGAACTTTGTCCTTTGAATATCTTGCCACCTTGTCGTAGCAGACTCTTCAAA

- -gggtggc
- - - - - -tgtggtg
- - - - - - - - - - - - - - - - - gcattac
- - - - - - - - - - - - - - - - - - - - - - - - - -gtatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcactt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atggtgg