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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtggtatctattttacactttcagaaagtgtgttttcatgcattagagaagttccatatgaccataccaatttcttgcattttgatagGCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTCAAGGAGAGCGGTACCTTCTAATATTTGGTGGTTGCTCTCATTCTATCTTCTTCAAT

Basic information

species Glycine max
transcript GLYMA10G34180.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G34180.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv13s0019g05290.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtggtatctattttacactttcagaaagtgtgttttcatgcattagagaagttccatatgaccataccaatttcttgcattttgatagGCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTCAAGGAGAGCGGTACCTTCTAATATTTGGTGGTTGCTCTCATTCTATCTTCTTCAAT
||||||   ||||| |||||  | | ||||         |      | |||   ||||    |        || |||||||  |||||||||||||||||||||| |||| |||| ||||||| |||||||  | || |  ||||| |||||||| || ||||| ||||| || ||||| || || ||||||
gtaagt---atctaatttactttatgagaagtcacaaacttgctt-tcagaagggttctgctt--------cattttcttgtgttttgatagGCAGACACCTCCAGCTCCCAGATTTGATCATACAGCTGCAGTGCATGCGGAGCGCTACCTTCTCATTTTTGGCGGTTGTTCGCATTCAATATTTTTCAAT
















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|193562436|gb|FK518225.1|FK518225
EST:     GTCCATGTTCTCGATCTTGAAAGTATGACTTGGGAAATGATAAAGACTAC                         GCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTCAAGGAGA
genomic: GTCCATGTTCTCGATCTTGAAAGTATGACTTGGGAAATGATAAAGACTACgtaagtggta ... attttgatagGCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTCAAGGAGA
EST: gi|8282738|gb|BE020299.1|BE020299
EST:     GTCCATGTTCTCGATCTTGAAAGTATGACTTGGGAAATGATAAAGACTAC                         GCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTCAAGGAGA
genomic: GTCCATGTTCTCGATCTTGAAAGTATGACTTGGGAAATGATAAAGACTACgtaagtggta ... attttgatagGCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTCAAGGAGA
EST: gi|193680450|gb|FK624370.1|FK624370
EST:     GTCCATGTTCTCGATCTTGAAAGTATGACTTGGGAAATGATAAAGACTAC                         GCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTCAAGGAGA
genomic: GTCCATGTTCTCGATCTTGAAAGTATGACTTGGGAAATGATAAAGACTACgtaagtggta ... attttgatagGCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTCAAGGAGA
EST: gi|151395590|gb|EV265467.1|EV265467
EST:     GTCCATGTTCTCGACCTTGAAAGTATGACTTGGGAAATGATAAAGACTAC                         GTAAGTGGCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTC
genomic: GTCCATGTTCTCGATCTTGAAAGTATGACTTGGGAAATGATAAAGACTACgtaagtggta ... attttgatagG-------CAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcatgcattagagaagttccatatgaccataccaatttcttgcattttgatagGCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTCAAGGAGAGCGGTACCTTCTAATATTTGGTGGTTGCTCTCATTCTATCTTCTTCAAT
                                             attttgata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtggtatctattttacactttcagaaagtgtgttttcatgcattagagaagttccatatgaccataccaatttcttgcattttgatagGCAGACACCTCCATCTCCTAGATATGATCATTCAGCTGCTATTCAAGGAGAGCGGTACCTTCTAATATTTGGTGGTTGCTCTCATTCTATCTTCTTCAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG