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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcttttctccatttaattgaaaccgacggaagaaaaaattttatactaatttttaattcattgacggtattgtatatttgttctcgttttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCCGAATCTCGACAGGCACCTTGTGTTCCCTCTCCTGGAGTTCCTGCAGGAG

Basic information

species Glycine max
transcript GLYMA10G16090.1
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|11274704|gb|BF325039.1|BF325039
EST:     CCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: CCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|209696602|gb|BW666924.1|BW666924
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|298198687|gb|HO042050.1|HO042050
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|254348331|gb|GR852010.1|GR852010
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|7926189|gb|AW832215.1|AW832215
EST:     CCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: CCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|254316955|gb|GR828492.1|GR828492
EST:     CTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: CTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|209697044|gb|BW667034.1|BW667034
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|298167046|gb|HO010485.1|HO010485
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|298178685|gb|HO024420.1|HO024420
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|6666245|gb|AW277704.1|AW277704
EST:     TTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|13240397|gb|BG359706.1|BG359706
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCA-CACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|209703907|gb|BW661597.1|BW661597
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|7284217|gb|AW596813.1|AW596813
EST:     TTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|19452506|gb|BM953916.1|BM953916
EST:     CAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCNGCGGATGGCGC
genomic: CAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCC-GCGGATGGCGC
EST: gi|7684739|gb|AW755387.1|AW755387
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|209721328|gb|BW665794.1|BW665794
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|15204029|gb|BI426797.1|BI426797
EST:     CTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: CTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
EST: gi|298181436|gb|HO022875.1|HO022875
EST:     TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAG                         AAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC
genomic: TCTTCTCTCGGAGCCGCTATTATCCCCAGACGCCACCGCCGCAGCACCAGgtgctctctc ... ttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactaatttttaattcattgacggtattgtatatttgttctcgttttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCCGAATCTCGACAGGCACCTTGTGTTCCCTCTCCTGGAGTTCCTGCAGGAG
                                 tttgttctcgttttc  CT-rich tract
     atttttaattcattga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttcttttctccatttaattgaaaccgacggaagaaaaaattttatactaatttttaattcattgacggtattgtatatttgttctcgttttcgctgcagAAGAAGAAGAAGAGTGATGGCTGAGTACGACCTAACTCCGCGGATGGCGCCGAATCTCGACAGGCACCTTGTGTTCCCTCTCCTGGAGTTCCTGCAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - ttctcca
- - - - - - - - - -tgaaacc
- - - - - - - - - - - - - - - - - aaaaaat