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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgcatcttactccctctctttttaccaattaccaatcaacaaattctcttttttttctcattatattgaatatattctcggttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAAGTTGAAAG

Basic information

species Glycine max
transcript GLYMA08G19660.1
intron # 2
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|192301236|gb|FG990186.1|FG990186
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|192328848|gb|FK022592.1|FK022592
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|18040251|gb|BM308545.1|BM308545
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGGTTTCACCAATTTGGCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|298194100|gb|HO040748.1|HO040748
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|151393611|gb|EV263486.1|EV263486
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|24206192|gb|BU965445.1|BU965445
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|151393020|gb|EV262895.1|EV262895
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|298180011|gb|HO025226.1|HO025226
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAACAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|5677852|gb|AI938982.1|AI938982
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|192302607|gb|FG994873.1|FG994873
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|7147014|gb|AW508936.1|AW508936
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|58018160|gb|CX704902.1|CX704902
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|192302608|gb|FG994874.1|FG994874
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|192301600|gb|FG994784.1|FG994784
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|14990628|gb|BI316301.1|BI316301
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|17153605|gb|BM143538.1|BM143538
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|192297638|gb|FG989931.1|FG989931
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGGTTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|151397245|gb|EV267118.1|EV267118
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|193532401|gb|FK489687.1|FK489687
EST:     CCTTCATAAGGTTTCGAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: CCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
EST: gi|193589731|gb|FK544647.1|FK544647
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACC
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACC
EST: gi|4405697|gb|AI507846.1|AI507846
EST:     GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA
genomic: GTCGCTCTGCTTCGGATGAGATCAGACCCGGCCTTCATAAGGTTTCAAAGgttgcatctt ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacaaattctcttttttttctcattatattgaatatattctcggttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAAGTTGAAAG
                                             ttttttgt  CT-rich tract
     aattctcttttttttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgcatcttactccctctctttttaccaattaccaatcaacaaattctcttttttttctcattatattgaatatattctcggttttttgtagCTATTGCGTGGAGATTCTGGGATGGTTTTCACCAATTTGTCAAAGGAAGAAGTTGAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT