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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactttcacactagaataacgcctttcaaccttaaagtatttcttaatgcactgcttggagaatctccttctttttagcttttatagttattactgccaagtttgacacaaatccttatgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAG

Basic information

species Glycine max
transcript GLYMA07G18210.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G18210.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g02260.t01 (Vitis vinifera), 3'ss of exon 3
gtaaactttcacactagaataacgcctttcaaccttaaagtatttcttaatgcactgcttggagaatctccttctttttagcttttatagttattactgccaagtttgacacaaatccttatgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAAC-CAG--
                                                  |   ||  ||||| ||| | ||      |   | |   | ||   |  |   | | | |||||||||   |  |||   ||||||||||| || | || ||| |||| ||||| |||||||||||| |||| |||||||||||    |  || | |  
-------------------------------------------------gtaatctctttggaaaattttctatcacctgaatatgtcatttggga--gtagattctaacacaaatctgaaacattagcagAGCCTTTCAGAGCAAACACGCGTTATCTTTCTTAGTGCTCCTCCTATCAACGAGGCACAAATCCGCGAGACACTGAG
















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|193492280|gb|FK453962.1|FK453962
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|151406549|gb|EV276364.1|EV276364
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|193561523|gb|FK518572.1|FK518572
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|298171010|gb|HO016042.1|HO016042
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|151398511|gb|EV268382.1|EV268382
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCCGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|193553650|gb|FK508607.1|FK508607
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|7591301|gb|AW707037.1|AW707037
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|58022084|gb|CX708825.1|CX708825
EST:     CATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTCTCAAAGAAGACTCGCCTTATATTTNTCAGTGCTCCTCCTGTCAAT
genomic: CATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|15815106|gb|BI787381.1|BI787381
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|298169237|gb|HO020597.1|HO020597
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|151404433|gb|EV274247.1|EV274247
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|192327728|gb|FK022035.1|FK022035
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|192327729|gb|FK022036.1|FK022036
EST:     ATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: ATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|151411903|gb|EV281714.1|EV281714
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|15813377|gb|BI785652.1|BI785652
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|151394124|gb|EV263995.1|EV263995
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|298189599|gb|HO038002.1|HO038002
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCCGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|15812713|gb|BI784988.1|BI784988
EST:     AAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: AAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|13478430|gb|BG507910.1|BG507910
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|193663264|gb|FK604052.1|FK604052
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|193675315|gb|FK619105.1|FK619105
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|19053011|gb|BM731678.1|BM731678
EST:     CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: CTCTCCAAGAATACATTGAAAATATGAGAAAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
EST: gi|8669315|gb|BE190422.1|BE190422
EST:     AAGATTGGTACCCATCTAAAG                         AGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT
genomic: AAGATTGGTACCCATCTAAAGgtaaactttc ... tgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttagcttttatagttattactgccaagtttgacacaaatccttatgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAG
                           gtttgac  putative branch site (score: 4)
                                       tccttat  putative PPT
      ttttatagttattact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaactttcacactagaataacgcctttcaaccttaaagtatttcttaatgcactgcttggagaatctccttctttttagcttttatagttattactgccaagtttgacacaaatccttatgattgctagAGCCTTTCAAAGAAGACTCGCCTTATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC