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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtttgctgtttccctaaccctaactatgtttttcccgcggcactgttaatttaacatgtcgtttatacttgttcagATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT

Basic information

species Glycine max
transcript GLYMA04G00200.1
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|208257927|gb|GE054500.1|GE054500
EST:     ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAG                         ATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
genomic: ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAGgtgtttgctg ... acttgttcagATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
EST: gi|207779367|gb|GD751625.1|GD751625
EST:     ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAG                         ATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
genomic: ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAGgtgtttgctg ... acttgttcagATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
EST: gi|192297484|gb|FG989519.1|FG989519
EST:     ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAG                         ATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
genomic: ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAGgtgtttgctg ... acttgttcagATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
EST: gi|298181686|gb|HO025861.1|HO025861
EST:     ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAG                         ATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
genomic: ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAGgtgtttgctg ... acttgttcagATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
EST: gi|298191416|gb|HO038895.1|HO038895
EST:     ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAG                         ATGTGGCTTTTCGCAACTCAATCA
genomic: ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAGgtgtttgctg ... acttgttcagATGAGGCTTTTCGCAACTCAATCA
EST: gi|208083021|gb|GD882203.1|GD882203
EST:     ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAG                         ATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
genomic: ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAGgtgtttgctg ... acttgttcagATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
EST: gi|298173640|gb|HO016976.1|HO016976
EST:     ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAG                         ATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
genomic: ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAGgtgtttgctg ... acttgttcagATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
EST: gi|298195373|gb|HO039204.1|HO039204
EST:     ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAG                         ATGAGGCTTTTCACAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
genomic: ATTTTCGGTTCCTTCTCTTGGTTGCCGCTGGCGTCTTCATCTATATCCAGgtgtttgctg ... acttgttcagATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactatgtttttcccgcggcactgttaatttaacatgtcgtttatacttgttcagATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT
                                              cttgttc  CT-rich tract
                      tgttaatttaacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtttgctgtttccctaaccctaactatgtttttcccgcggcactgttaatttaacatgtcgtttatacttgttcagATGAGGCTTTTCGCAACTCAATCAGAATATGCTGATCGCCTAGCTGCAGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT