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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggtcatggtgccaatatgttcaaaagaacaaattcaatatatattaaaattctattttgcctagttctaatgtttttgaatggtgttttgtttcaacagTCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATCAAGGGAGAGGTTTACAGTAGCTATATTCAA

Basic information

species Glycine max
transcript GLYMA01G41570.1
intron # 7
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|298163157|gb|HO011890.1|HO011890
EST:     TCTCTTTAGCAGGCCCTCACGCTGGTACTGCTTCAGTTCCCCTATGTGGT                         TCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATC
genomic: TCTCTTTAGCAGGCCCTCACGCTGGTACTGCTTCAGTTCCCCTATGTGGTgtgagtatca ... gtttcaacagTCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATC
EST: gi|24136207|gb|BU926717.1|BU926717
EST:     TCTCTTTAGCAGGCCCTCACGCTGGTACTGCTTCAGTTCCCCTATGTGGT                         TCAAGTATCTTCTGCGGTCTTGCAGAAACCCTCATC
genomic: TCTCTTTAGCAGGCCCTCACGCTGGTACTGCTTCAGTTCCCCTATGTGGTgtgagtatca ... gtttcaacagTCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATC
EST: gi|213613400|gb|DB956914.1|DB956914
EST:     TCTCTTTAGCAGGCCCTCACGCTGGTACTGCTTCAGTTCCCCTATGTGGT                         TCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATCAAGGGAGAGGTTTAC
genomic: TCTCTTTAGCAGGCCCTCACGCTGGTACTGCTTCAGTTCCCCTATGTGGTgtgagtatca ... gtttcaacagTCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATCAAGGGAGAGGTTTAC
EST: gi|21285430|gb|BQ473301.1|BQ473301
EST:     TCTCTTTAGCAGGCCCTCACGCTGGTACTGCTTCAGTTCCCCTATGTGGT                         TCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATCAAGGGAGAGGTTTAC
genomic: TCTCTTTAGCAGGCCCTCACGCTGGTACTGCTTCAGTTCCCCTATGTGGTgtgagtatca ... gtttcaacagTCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATCAAGGGAGAGGTTTAC
EST: gi|9901990|gb|BE610958.1|BE610958
EST:     TCTCTTTAGCAGGCCCTCACGCTGGTACTGCTTCAGTTCCCCTATGTGGT                         TCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATCAAGGGAGAGGTTTAC
genomic: TCTCTTTAGCAGGCCCTCACGCTGGTACTGCTTCAGTTCCCCTATGTGGTgtgagtatca ... gtttcaacagTCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATCAAGGGAGAGGTTTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaattctattttgcctagttctaatgtttttgaatggtgttttgtttcaacagTCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATCAAGGGAGAGGTTTACAGTAGCTATATTCAA
                    ttctaat  putative branch site (score: 2)
                                         ttttgtttc  putative PPT
                       taatgtttttgaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggtcatggtgccaatatgttcaaaagaacaaattcaatatatattaaaattctattttgcctagttctaatgtttttgaatggtgttttgtttcaacagTCAGGTATCTTCTGCGTTCTTGCAGACACCCTCATCAAGGGAGAGGTTTACAGTAGCTATATTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - tggtgcc
- - - - - - - - - - - aaaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatggtg