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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggccatgatgtagtttccaaacttctgctacagtgttgatttgctcttaagatggttattgatctcttatggattttatgagctttaaatcattgatttcaatgttgaattgttctaacagCCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCGTCGTGGCAGAAGCCGGGATCGAAGCTACAGCCGAGACCGCAACTACAG

Basic information

species Glycine max
transcript GLYMA19G35990.1
intron # 5
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|208200581|gb|GD997716.1|GD997716
EST:     GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAG                         CCGACATG-ACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCG
genomic: GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAGgtaggccatg ... gttctaacagCCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCG
EST: gi|151406157|gb|EV275972.1|EV275972
EST:     GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAG                         CCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCG
genomic: GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAGgtaggccatg ... gttctaacagCCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCG
EST: gi|208093331|gb|GD895226.1|GD895226
EST:     GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAG                         CCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCG
genomic: GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAGgtaggccatg ... gttctaacagCCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCG
EST: gi|298180260|gb|HO025475.1|HO025475
EST:     GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAG                         CCGACATGGACGGAGTCTTTCACGTTCACCGGTCC
genomic: GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAGgtaggccatg ... gttctaacagCCGACATGGACGGAGTCTTTCACGTTCACCGGTCC
EST: gi|7042407|gb|AW472301.1|AW472301
EST:     GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCCAAAAGTCGAG                         CCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCA
genomic: GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAGgtaggccatg ... gttctaacagCCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCG
EST: gi|298165666|gb|HO008637.1|HO008637
EST:     GAAAGAGGTCATGTAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAG                         CCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCT
genomic: GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAGgtaggccatg ... gttctaacagCCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCT
EST: gi|193303933|gb|FK270746.1|FK270746
EST:     GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAG                         CCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCG
genomic: GAAAGAGGTCATATAGAAAAGAACTGTAAGAACAGTCCCAAAAAGTCGAGgtaggccatg ... gttctaacagCCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatggattttatgagctttaaatcattgatttcaatgttgaattgttctaacagCCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCGTCGTGGCAGAAGCCGGGATCGAAGCTACAGCCGAGACCGCAACTACAG
                        cattgat  putative branch site (score: 4)
                                           ttgttct  putative PPT
                 tttaaatcattgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggccatgatgtagtttccaaacttctgctacagtgttgatttgctcttaagatggttattgatctcttatggattttatgagctttaaatcattgatttcaatgttgaattgttctaacagCCGACATGGACGGAGTCTTTCACGTTCACCGGTCCGGTCACATTCTCCTCGTCGTGGCAGAAGCCGGGATCGAAGCTACAGCCGAGACCGCAACTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC