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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acgtagtattctcgttttataacttcagatagtttgtaagatctagtgacactgctatagcatttaacatgctttttctacatggatatttgtttttcagGGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACTTCTAATGACAAAACGGAAAGAATACCACTTTTGAAGAGGGATATTATAA

Basic information

species Glycine max
transcript GLYMA15G10620.1
intron # 9
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|58025287|gb|CX712028.1|CX712028
EST:     CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAGG                         GGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAAC
genomic: CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCA-Ggttaggacta ... tgtttttcagGGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAAC
EST: gi|22931818|gb|BU548957.1|BU548957
EST:     NNCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAG                         GGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACT
genomic: CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAGgttaggacta ... tgtttttcagGGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACT
EST: gi|254326930|gb|GR836539.1|GR836539
EST:     CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAG                         GGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACT
genomic: CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAGgttaggacta ... tgtttttcagGGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACT
EST: gi|151402884|gb|EV272697.1|EV272697
EST:     CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAG                         GGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACT
genomic: CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAGgttaggacta ... tgtttttcagGGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACT
EST: gi|10846309|gb|BF069227.1|BF069227
EST:     CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAG                         GGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACT
genomic: CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAGgttaggacta ... tgtttttcagGGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACT
EST: gi|7285022|gb|AW597509.1|AW597509
EST:     CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAG                         GGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACT
genomic: CTCAGGGCTGCTCCCAAGATAACATGCTATCAGTTGCAATTAACAGCCAGgttaggacta ... tgtttttcagGGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgacactgctatagcatttaacatgctttttctacatggatatttgtttttcagGGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACTTCTAATGACAAAACGGAAAGAATACCACTTTTGAAGAGGGATATTATAA
                atttaac  putative branch site (score: 3)
                                           tttgtttttc  putative PPT
                                        atatttgtttttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acgtagtattctcgttttataacttcagatagtttgtaagatctagtgacactgctatagcatttaacatgctttttctacatggatatttgtttttcagGGTATCCTGTCGAGAACAGATGAGAAGTGGGGAGTACTGAAAAGTCCAACTTCTAATGACAAAACGGAAAGAATACCACTTTTGAAGAGGGATATTATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - -cactgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catggat