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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagatttcttattgtttattaatgatcattattcatctattttcgtttaacctaatttaattgattaattaattatcattatgccggtctcattgaatgagttgaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAGGTCACTAAAG

Basic information

species Glycine max
transcript GLYMA14G09100.1
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|298180955|gb|HO022394.1|HO022394
EST:     AAGTCACCNNNNNNNTTGGACTCGTTTATCAGATTCAAATTGCTCCTAAG                         AAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
genomic: AAGTCACCAAAAAAATTGGACTCGTTTATCAGATTCAAATTGCTCCTAAGgttagatttc ... gaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
EST: gi|151408508|gb|EV278316.1|EV278316
EST:     AAGTCACCNNNNNNNTTGGACTCGTTTATCAGATTCAAATTGCTCCTAAG                         AAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
genomic: AAGTCACCAAAAAAATTGGACTCGTTTATCAGATTCAAATTGCTCCTAAGgttagatttc ... gaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
EST: gi|151398541|gb|EV268412.1|EV268412
EST:     AAGTCACCNNNNNNNTTGGACTCGTTTATCAGATTCAAATTGCTCCTAAG                         AAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
genomic: AAGTCACCAAAAAAATTGGACTCGTTTATCAGATTCAAATTGCTCCTAAGgttagatttc ... gaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
EST: gi|37995730|gb|CF807319.1|CF807319
EST:     AGTCACCNNNNNNNTTGGACTCGTTTATCAGATTCATTATTGCTCCTAAG                         AAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
genomic: AGTCACCAAAAAAATTGGACTCGTTTATCAGATTCA-AATTGCTCCTAAGgttagatttc ... gaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
EST: gi|21255711|gb|BQ452599.1|BQ452599
EST:     AAGTCACCNNNNNNNTTGGACTCGTTTATCAGATTCAAATTGCTCCTAAG                         AAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGATAG
genomic: AAGTCACCAAAAAAATTGGACTCGTTTATCAGATTCAAATTGCTCCTAAGgttagatttc ... gaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
EST: gi|21888088|gb|BQ741301.1|BQ741301
EST:     AAGTCACCNNNNNNNTTGGACTCGTTTATCAGATTCAAATTGCTCCTAAG                         AAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
genomic: AAGTCACCAAAAAAATTGGACTCGTTTATCAGATTCAAATTGCTCCTAAGgttagatttc ... gaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
EST: gi|16349133|gb|BI974728.1|BI974728
EST:     AAGTCACCNNNNNNNTTGGACTCGTTTATCAGATTCAAATTGCTCCTAAG                         AAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
genomic: AAGTCACCAAAAAAATTGGACTCGTTTATCAGATTCAAATTGCTCCTAAGgttagatttc ... gaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
EST: gi|254348692|gb|GR852371.1|GR852371
EST:     AAGTCACCNNNNNNNTTGGACTCGTTTATCAGATTCAAATTGCTCCTAAG                         AAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG
genomic: AAGTCACCAAAAAAATTGGACTCGTTTATCAGATTCAAATTGCTCCTAAGgttagatttc ... gaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgattaattaattatcattatgccggtctcattgaatgagttgaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAGGTCACTAAAG
        aattaat  putative branch site (score: 3)
                                                tttct  putative PPT
     attaattaattatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagatttcttattgtttattaatgatcattattcatctattttcgtttaacctaatttaattgattaattaattatcattatgccggtctcattgaatgagttgaatttctagAAACTTGGAATCGACGAGGTCGTCTACACCGTTGATCTCAGGAAAGGAGAGGTCACTAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG