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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtatcttgatggttaaaataggattgccattatcatagctgtaacagtgcaatcaaaatatataattttgttgagtttgctaatgttatcttatctttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGTTTCCATGCGTATCAACAA

Basic information

species Glycine max
transcript GLYMA06G19250.1
intron # 6
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|15204358|gb|BI427126.1|BI427126
EST:     CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|120496570|gb|EH224737.1|EH224737
EST:     CCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|10253112|gb|BE820878.1|BE820878
EST:     CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|11687638|gb|BF595314.1|BF595314
EST:     CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|22522844|gb|BU081655.1|BU081655
EST:     CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|261497053|gb|GT185228.1|GT185228
EST:     GGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: GGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|13789795|gb|BG652386.1|BG652386
EST:     CCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|51337755|gb|CO981621.1|CO981621
EST:     CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|254322816|gb|GR839837.1|GR839837
EST:     CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|8404251|gb|BE059885.1|BE059885
EST:     CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|6725472|gb|AW309871.1|AW309871
EST:     CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|15204323|gb|BI427091.1|BI427091
EST:     CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|208032805|gb|GD830464.1|GD830464
EST:     ACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAACGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
genomic: ACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGT
EST: gi|17518865|gb|BM187907.1|BM187907
EST:     CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCT                         GGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCT
genomic: CTATCTTCATGGAGGGTGTCAAATTTACCCCTGCTTACTTGCAATCTGCTgtgagtatct ... ttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcaaaatatataattttgttgagtttgctaatgttatcttatctttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGTTTCCATGCGTATCAACAA
                          tgctaat  putative branch site (score: 2)
                                  ttatcttatctttctt  CT-rich tract
     aatatataattttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtatcttgatggttaaaataggattgccattatcatagctgtaacagtgcaatcaaaatatataattttgttgagtttgctaatgttatcttatctttcttgacagGGGGTGAATGTTAGACAACTTTACATCAGATCTCTTCTTGCTGCTCTCTGTTTCCATGCGTATCAACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT