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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaagctcgctcgctcacaaccatttctattgactcattcccatcattatcaaccaaaccattcttcttttctttgtttaatcaatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATGGAGAGGGAACTTTCCGAG

Basic information

species Glycine max
transcript GLYMA07G40240.1
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|298191400|gb|HO038879.1|HO038879
EST:     TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
EST: gi|298168743|gb|HO009673.1|HO009673
EST:     TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
EST: gi|8669105|gb|BE190212.1|BE190212
EST:     TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
EST: gi|298172500|gb|HO019540.1|HO019540
EST:     TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
EST: gi|9820674|gb|BE556184.1|BE556184
EST:     CCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: CCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
EST: gi|21675141|gb|BQ627501.1|BQ627501
EST:     TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
EST: gi|37995015|gb|CF806604.1|CF806604
EST:     TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
EST: gi|192331101|gb|FK020321.1|FK020321
EST:     TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
EST: gi|9564643|gb|BE474152.1|BE474152
EST:     TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
EST: gi|192334366|gb|FK025543.1|FK025543
EST:     TTGAGGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
EST: gi|192325803|gb|FK018025.1|FK018025
EST:     TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAG                         GTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG
genomic: TTGAAGAGTTGGCCTCGAATCTTTCCCTCTACAAAGATCAACTGAACCAGgtaagtaagc ... aatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcccatcattatcaaccaaaccattcttcttttctttgtttaatcaatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATGGAGAGGGAACTTTCCGAG
                                     gtttaat  putative branch site (score: 4)
                             ttttctttgtttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtaagctcgctcgctcacaaccatttctattgactcattcccatcattatcaaccaaaccattcttcttttctttgtttaatcaatcaatcagGTTAGGCAACTCTTGAACGATGACCCTTCAAATTCTGAATATGCTGACATGGAGAGGGAACTTTCCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG