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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggttcctaacttaatctgttttaggcaaaccttcatttttccccttaaaattctgaggatataaattgggatgccttttcttgttgtgtttttcagGCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG

Basic information

species Glycine max
transcript GLYMA05G04580.1
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|7284923|gb|AW597410.1|AW597410
EST:     GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAA                         GCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
genomic: GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAAgtgggttcct ... tgtttttcagGCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
EST: gi|193540886|gb|FK493934.1|FK493934
EST:     GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAA                         GCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
genomic: GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAAgtgggttcct ... tgtttttcagGCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
EST: gi|192326599|gb|FK018846.1|FK018846
EST:     GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAA                         GCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
genomic: GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAAgtgggttcct ... tgtttttcagGCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
EST: gi|209700050|gb|BW656218.1|BW656218
EST:     GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAA                         GCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
genomic: GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAAgtgggttcct ... tgtttttcagGCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
EST: gi|192324904|gb|FK015385.1|FK015385
EST:     GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAA                         GCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
genomic: GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAAgtgggttcct ... tgtttttcagGCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
EST: gi|10848335|gb|BF070847.1|BF070847
EST:     GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAA                         GCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
genomic: GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAAgtgggttcct ... tgtttttcagGCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
EST: gi|298189123|gb|HO037526.1|HO037526
EST:     GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAA                         GCGGCAAGAGGATTTACTGAG
genomic: GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAAgtgggttcct ... tgtttttcagGCAGCAAGAGGATTTACTGAG
EST: gi|10843377|gb|BF067174.1|BF067174
EST:     GAGGTTCTGGTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAA                         GCAGCAAGAAGATTTACTGA
genomic: GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAAgtgggttcct ... tgtttttcagGCAGCAAGAGGATTTACTGA
EST: gi|298169114|gb|HO020474.1|HO020474
EST:     GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAA                         GCGGCAAGAGGATTTACTGAGCGACCTGAATCTCAAGACAGATCTGCAGAG
genomic: GAGGTTCTGTTTCAGAGAATGGAAATGCCAATGGTTCTGACTTCACACAAgtgggttcct ... tgtttttcagGCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccttaaaattctgaggatataaattgggatgccttttcttgttgtgtttttcagGCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG
                                ccttttcttgttgtgt  CT-rich tract
                 atataaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggttcctaacttaatctgttttaggcaaaccttcatttttccccttaaaattctgaggatataaattgggatgccttttcttgttgtgtttttcagGCAGCAAGAGGATTTACTGAGCGGCCTGAATCTCAAGACAAATCTGCAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG