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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttttgaactatagttggtgaattaaaatgtgtgaaatatcagtatataaaccttgatctgtagggtgtgaaatgaatcgatgtgtatttttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGTCAATATGATGCTAAGATGAATGAGTT

Basic information

species Glycine max
transcript GLYMA04G05580.1
intron # 1
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|192332026|gb|FK026320.1|FK026320
EST:     CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAG                         TTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGT
genomic: CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAGgtttgatttc ... ttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGT
EST: gi|11412316|gb|BF424327.1|BF424327
EST:     CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAG                         TTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATT
genomic: CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAGgtttgatttc ... ttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATT
EST: gi|13478011|gb|BG507660.1|BG507660
EST:     CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAG                         TTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATT
genomic: CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAGgtttgatttc ... ttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATT
EST: gi|209718869|gb|BW669056.1|BW669056
EST:     CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAG                         TTTGCTATCATGGCTGGGTTGGCGCCTGAAGGATCACAATTTGATGCTCGT
genomic: CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAGgtttgatttc ... ttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGT
EST: gi|11689059|gb|BF596735.1|BF596735
EST:     CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAG                         TTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAA
genomic: CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAGgtttgatttc ... ttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAA
EST: gi|213610635|gb|DB961110.1|DB961110
EST:     CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAG                         TTTGCTATCATGGCTGGGTTGGCGCCTGAAGGATCACAATTTGATGCTCGT
genomic: CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAGgtttgatttc ... ttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGT
EST: gi|209717675|gb|BW671519.1|BW671519
EST:     CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAG                         TTTGCTATCATGGCTGGGTTGGCGCCTGAAGGATCACAATTTGATGCTCGT
genomic: CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAGgtttgatttc ... ttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGT
EST: gi|254319672|gb|GR830804.1|GR830804
EST:     CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAG                         TTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGT
genomic: CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAGgtttgatttc ... ttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGT
EST: gi|209707836|gb|BW683732.1|BW683732
EST:     CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAG                         TTTGCTATCATGGCTGGGTTGGCGGCTGAAGGATCACAATTTGATGCTCGT
genomic: CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAGgtttgatttc ... ttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGT
EST: gi|298185063|gb|HO030276.1|HO030276
EST:     CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAG                         TTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGT
genomic: CACTCTTTTTCATTGTTTGATAATTCGAACTTCCTCCATCTTTCCCGAAGgtttgatttc ... ttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataaaccttgatctgtagggtgtgaaatgaatcgatgtgtatttttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGTCAATATGATGCTAAGATGAATGAGTT
      ccttgat  putative branch site (score: 5)
                                        tatttttcttt  putative PPT
                                        tatttttcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttttgaactatagttggtgaattaaaatgtgtgaaatatcagtatataaaccttgatctgtagggtgtgaaatgaatcgatgtgtatttttctttgcagTTTGCTATCATGGCTGGGTTGGCGCCAGAAGGATCACAATTTGATGCTCGTCAATATGATGCTAAGATGAATGAGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - -gttggtg
- - - - - - - - - - - - - - tgtgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggtgtg