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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaggggtatttttaacatctgttaccacatttccttttcaaataatctatttcctgctatttgctcgacacttctattaattagaaaagtttgtcatagGACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATCAAGAGACTAAGTTCTTTTGATATGTACAAGCAAGAAGTTCTCCTTGGCC

Basic information

species Glycine max
transcript GLYMA16G25740.1
intron # 10
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|19937594|gb|BQ081353.1|BQ081353
EST:     CACAGGCGTGGAGTGATGAG                         GACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATC
genomic: CACAGGCGTGGAGTGATGAGgtgagataat ... tttgtcatagGACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATC
EST: gi|17518712|gb|BM187754.1|BM187754
EST:     AGCTGGCACAAGTTGTCCAGAGTTTAAAAGCACAGGCGTGGAGTGATGAG                         GACTTGTTGGAG
genomic: AGCTGGCACAAGTTGTCCAGAGTTTAAAAGCACAGGCGTGGAGTGATGAGgtgagataat ... tttgtcatagGACTTGTTGGAG
EST: gi|7925310|gb|AW831397.1|AW831397
EST:     AGCTGGCACAAGTTGTGCAGAGTTTAAAAGCACAGGCGTGGAGTGATGAG                         GACTTGGTGGAGGCCGCTTA-TTCCCTGGAGAGAAGG-CTTAAG
genomic: AGCTGGCACAAGTTGTCCAGAGTTTAAAAGCACAGGCGTGGAGTGATGAGgtgagataat ... tttgtcatagGACTTGTTGGAGGCC-CTAAATTCCCTGGA-AGAAGGGCTTAAG
EST: gi|298167218|gb|HO010657.1|HO010657
EST:     AGCTGGCACAAGTTGTCCAGAGTTTAAAAGCACAGGCGTGGAGTGATGAG                         GACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATC
genomic: AGCTGGCACAAGTTGTCCAGAGTTTAAAAGCACAGGCGTGGAGTGATGAGgtgagataat ... tttgtcatagGACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATC
EST: gi|13180759|gb|BG352099.1|BG352099
EST:     AGCTGGCACAAGTTGTCCAGAGTTTAAAAGCACAGGCGTGGAGTGATGAG                         GACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATC
genomic: AGCTGGCACAAGTTGTCCAGAGTTTAAAAGCACAGGCGTGGAGTGATGAGgtgagataat ... tttgtcatagGACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATC
EST: gi|16346805|gb|BI972400.1|BI972400
EST:     CACAGGCGTGGAGTGATGAG                         GACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATC
genomic: CACAGGCGTGGAGTGATGAGgtgagataat ... tttgtcatagGACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATC
EST: gi|12773665|gb|BG238592.1|BG238592
EST:     AGCTGGCACAAGTTGTCCAGAGTTTAAAAGCACAGGCGTGGAGTGATGAG                         GACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATC
genomic: AGCTGGCACAAGTTGTCCAGAGTTTAAAAGCACAGGCGTGGAGTGATGAGgtgagataat ... tttgtcatagGACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctatttcctgctatttgctcgacacttctattaattagaaaagtttgtcatagGACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATCAAGAGACTAAGTTCTTTTGATATGTACAAGCAAGAAGTTCTCCTTGGCC
                              tattaat  putative branch site (score: 2)
                           ttctattaattagaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agaggggtatttttaacatctgttaccacatttccttttcaaataatctatttcctgctatttgctcgacacttctattaattagaaaagtttgtcatagGACTTGTTGGAGGCCCTAAATTCCCTGGAAGAAGGGCTTAAGGATAATATCAAGAGACTAAGTTCTTTTGATATGTACAAGCAAGAAGTTCTCCTTGGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
agagggg
- - - - - - - - - - tgttacc