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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgtgtgttgtttctgaacgattcctttgttatctttttcaattttgccagagtacttgaatgtatggtctcttttaacggaagttttgctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATGATGCTAAGATGAGTGAATT

Basic information

species Glycine max
transcript GLYMA07G00950.1
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|209700933|gb|BW661312.1|BW661312
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|213600324|gb|DB964362.1|DB964362
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|7478717|gb|AW666377.1|AW666377
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|18690820|gb|BM519668.1|BM519668
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|298189308|gb|HO037711.1|HO037711
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|298187389|gb|HO034538.1|HO034538
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|298174095|gb|HO017431.1|HO017431
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCGATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|209707371|gb|BW670637.1|BW670637
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|209720997|gb|BW682476.1|BW682476
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|15337080|gb|BI497736.1|BI497736
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|298177476|gb|HO023609.1|HO023609
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTCATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|298184844|gb|HO030057.1|HO030057
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
EST: gi|298193029|gb|HO033407.1|HO033407
EST:     TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG
genomic: TTACCCCTTAGCTTTTTCTCTTTCCTTATTCTATTTCAAACTTCCACCAGgtatgtctcg ... ctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgccagagtacttgaatgtatggtctcttttaacggaagttttgctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATGATGCTAAGATGAGTGAATT
                            ttttaac  putative branch site (score: 2)
                                        ttttgcttttt  putative PPT
                          tcttttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgtgtgttgtttctgaacgattcctttgttatctttttcaattttgccagagtacttgaatgtatggtctcttttaacggaagttttgctttttgcagTGATGGCAGGTTTGGCTCCAGAAGGAACACAATTTGATGGTCGCCAATATGATGCTAAGATGAGTGAATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- tgtgtgt
- - - - - gtttctg
- - - - - - - - - - - -tcctttg
- - - - - - - - - - - - - - - - - - - - - -ttttgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgta