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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttaaaattgaatcttatttcatctattgtggattcatgtcatgctgtctaatcaatatctacatttgctttaacattattcgattcaatatggactgttgcaacttatttattctcagaacatgacagttttcttttcccctgttaatttctatttagCATGGAGGAGATTCACTCTGCATGTCAAGATGCAGTAAATGGAGTACCATCGAGAAGACCGGTTATTGAGATGACAATTCCCTCTGTACTGGACAAAACT

Basic information

species Glycine max
transcript GLYMA16G25390.1
intron # 10
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|298174413|gb|HO014558.1|HO014558
EST:     CCACATGCTGGCCCACAGCATGTCGGCACAATTCATATAGGTTCAGAAAG                         CATGGAGGAGATTCACTCTGCATGTCAAGATGCAGTAAATGGAGTACCATC
genomic: CCACATGCTGGCCCACAGCATGTCGGCACAATTCATATAGGTTCAGAAAGgtatgttaaa ... ttctatttagCATGGAGGAGATTCACTCTGCATGTCAAGATGCAGTAAATGGAGTACCATC
EST: gi|151398508|gb|EV268379.1|EV268379
EST:     CCACATGCTGGCCCACAGCATGTCGGCACAATTCATATAGGTTCAGAAAG                         CATGGAGGAGATTCACTCTGCATGTCAAGATGCAGTAAATGGAGTACCATC
genomic: CCACATGCTGGCCCACAGCATGTCGGCACAATTCATATAGGTTCAGAAAGgtatgttaaa ... ttctatttagCATGGAGGAGATTCACTCTGCATGTCAAGATGCAGTAAATGGAGTACCATC
EST: gi|58017284|gb|CX704026.1|CX704026
EST:     CCACATGCTGGCCCACAGCATGTCGGCACAATTCATATAGGTTCAGAAAG                         CATGGAGGAGATTCACTCTGCATGTCAAGATGCAGTAAATGGAGTACCATC
genomic: CCACATGCTGGCCCACAGCATGTCGGCACAATTCATATAGGTTCAGAAAGgtatgttaaa ... ttctatttagCATGGAGGAGATTCACTCTGCATGTCAAGATGCAGTAAATGGAGTACCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttatttattctcagaacatgacagttttcttttcccctgttaatttctatttagCATGGAGGAGATTCACTCTGCATGTCAAGATGCAGTAAATGGAGTACCATCGAGAAGACCGGTTATTGAGATGACAATTCCCTCTGTACTGGACAAAACT
                                      tgttaat  putative branch site (score: 3)
                         ttttcttttcccctgt  CT-rich tract
                                      tgttaatttctattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttaaaattgaatcttatttcatctattgtggattcatgtcatgctgtctaatcaatatctacatttgctttaacattattcgattcaatatggactgttgcaacttatttattctcagaacatgacagttttcttttcccctgttaatttctatttagCATGGAGGAGATTCACTCTGCATGTCAAGATGCAGTAAATGGAGTACCATCGAGAAGACCGGTTATTGAGATGACAATTCCCTCTGTACTGGACAAAACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG