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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccctaaccctagccctaactctatccctattggcttattcgtttccattcatttctccgaactggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTGAAGAAGCAGCAGGAGATTCACACTCGCCTCGCCGCCGAACGCAAGATAT

Basic information

species Glycine max
transcript GLYMA20G35300.1
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|9899691|gb|BE608659.1|BE608659
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|208201256|gb|GE001724.1|GE001724
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGG
EST: gi|298191392|gb|HO038871.1|HO038871
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCACTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|298191906|gb|HO035988.1|HO035988
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|26269006|gb|CA820069.1|CA820069
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|5606463|gb|AI900497.1|AI900497
EST:     CCGTTTTCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|37995190|gb|CF806779.1|CF806779
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|17963780|gb|BM270525.1|BM270525
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|7146557|gb|AW508479.1|AW508479
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTNCCGAGGTGCGAGACGCGCANGAACAGAAGTTGGAGGCGCTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|254342792|gb|GR858954.1|GR858954
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|208064672|gb|GD865948.1|GD865948
EST:     ATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
genomic: ATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|37994097|gb|CF805843.1|CF805843
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|208065370|gb|GD866296.1|GD866296
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGG
EST: gi|207822205|gb|GD793566.1|GD793566
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCG
EST: gi|151396491|gb|EV266368.1|EV266368
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGAGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTG
EST: gi|193624490|gb|FK576568.1|FK576568
EST:     CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAG                         AATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAG
genomic: CCGTTTCCCTCAAAAACCAGATTCGATCCCTTGAGCGCATGCTCCGCAAGgtaaccctaa ... ggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctatccctattggcttattcgtttccattcatttctccgaactggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTGAAGAAGCAGCAGGAGATTCACACTCGCCTCGCCGCCGAACGCAAGATAT
                            attcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaccctaaccctagccctaactctatccctattggcttattcgtttccattcatttctccgaactggtatagcagAATCTGCCTCCCGAGGTGCGAGACGCGCAGGAACAGAAGTTGGAGGCGCTGAAGAAGCAGCAGGAGATTCACACTCGCCTCGCCGCCGAACGCAAGATAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA