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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataattttaggattttttttcctccctagatgtctatgtttcttttttgcttatgtatctactgcagttttctgtagggtatagctgtgtacttcaatctatgtcagttctattatttatccatgtttctttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAGGATGATTTGGAAGCGGAAGCCCGAGCAGAGAAACGAATTATGAATGCTA

Basic information

species Glycine max
transcript GLYMA06G21900.2
intron # 8
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|254345263|gb|GR855813.1|GR855813
EST:     TTCTCCTGGG-TTTTAGAGGATGCTTTGGATGAG                         GAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
genomic: TTCTCCTGGGTTTTTAGAGGATGCTTTGGATGAGgtataatttt ... tttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
EST: gi|58024376|gb|CX711117.1|CX711117
EST:     TTTTAGAGGATGCTTTGGATGAG                         GAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
genomic: TTTTAGAGGATGCTTTGGATGAGgtataatttt ... tttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
EST: gi|254345262|gb|GR855812.1|GR855812
EST:     AGAGGAGGCGTCAACTTTCTCCTGGGTTTTTAGAGGATGCTTTGGATGAG                         GAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
genomic: AGAGGAGGCGTCAACTTTCTCCTGGGTTTTTAGAGGATGCTTTGGATGAGgtataatttt ... tttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
EST: gi|58021318|gb|CX708059.1|CX708059
EST:     AGAGGAGGCGTCAACTTTCTCCTGGG-TTTTAGAGGATGCTTTGGATGAG                         GAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
genomic: AGAGGAGGCGTCAACTTTCTCCTGGGTTTTTAGAGGATGCTTTGGATGAGgtataatttt ... tttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
EST: gi|151412765|gb|EV282577.1|EV282577
EST:     AGAGGAGGCGTCAACTTTCTCCTGGGTTTTTAGAGGATGCTTTGGATGAG                         GAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
genomic: AGAGGAGGCGTCAACTTTCTCCTGGGTTTTTAGAGGATGCTTTGGATGAGgtataatttt ... tttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
EST: gi|58014328|gb|CX701070.1|CX701070
EST:     AGAGGAGGCGTCAACTTTTTCCTGGTTTTTTAGAGGATGCTTTGGATGAG                         GAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
genomic: AGAGGAGGCGTCAACTTTCTCCTGGGTTTTTAGAGGATGCTTTGGATGAGgtataatttt ... tttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
EST: gi|192325644|gb|FK019500.1|FK019500
EST:     AGAGGAGGCGTCAACTTTCTCCTGGGTTTTTAGAGGATGCTTT-GATGAG                         GAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
genomic: AGAGGAGGCGTCAACTTTCTCCTGGGTTTTTAGAGGATGCTTTGGATGAGgtataatttt ... tttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
EST: gi|192323525|gb|FK017106.1|FK017106
EST:     AGAGGAGGCGTCAACTTTCTCCTGGGTTTTTAGAGGATGCTTTGGATGAG                         GAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG
genomic: AGAGGAGGCGTCAACTTTCTCCTGGGTTTTTAGAGGATGCTTTGGATGAGgtataatttt ... tttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtgtacttcaatctatgtcagttctattatttatccatgtttctttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAGGATGATTTGGAAGCGGAAGCCCGAGCAGAGAAACGAATTATGAATGCTA
                               tttatccatgtttctt  CT-rich tract
                     agttctattatttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataattttaggattttttttcctccctagatgtctatgtttcttttttgcttatgtatctactgcagttttctgtagggtatagctgtgtacttcaatctatgtcagttctattatttatccatgtttctttccttcagGAGGATGAAGCGGATTATTATGATAATCGTCGTTCTCAGCATCGCTTTGAGGATGATTTGGAAGCGGAAGCCCGAGCAGAGAAACGAATTATGAATGCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG