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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCGAGAAGCACAATTAGCACAATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttcccttttcccttagtcattaaattaaatttgtagtgtaattagatttcaattctatccccccccccccccccccttctctataaacttctgccc...

Basic information

species Glycine max
transcript GLYMA02G03750.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G03750.1 (Glycine max), 5'ss of exon 18
lower sequence: Vv01s0026g00340.t01 (Vitis vinifera), 5'ss of exon 19
GTGCGAGAAGCACAATTAGCACAATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttcccttt-tcccttagtcattaaattaaatttgtagtgtaattagatttcaattctatccccccccccccccccccttctctataaacttctgccc
|| |||||||| || || || || |||||||| || ||||||||||| ||||||||||| || |||||||||||||  |   |  |   ||| |   || | |  |  ||   | | ||    |    | | | |   |       |       | |     |  ||   || 
GTACGAGAAGCTCAGTTGGCCCAGTACAACTATATATTGGTTGTTGGCGAGGAGGAAGCCAACACAGGACAGgtttgacatatcataatttaattcatatagtttaggtgccttttgatgcattgctgaatttttatacaatttagctattaaatttgagacagtttgcacc-

upper sequence: GLYMA02G03750.1 (Glycine max), 5'ss of exon 18
lower sequence: Vv19s0015g00470.t01 (Vitis vinifera), 5'ss of exon 19
GTGCGAGAAGCACAATTAGCACAATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttcccttttcccttag--tcattaaattaaatttgtagtgtaattagatttcaattctatccccccccccccccccccttctctataaacttctgccc-
|| |||||||| || || || || |||||||  || ||||||||||| ||||||||||| || ||| |||||||||  |   |     ||    ||||  | |||  |   |  ||    | | || |     | |    |      |  |    | |     |  ||   ||  
GTACGAGAAGCTCAGTTGGCCCAGTACAACTTTATATTGGTTGTTGGCGAGGAGGAAGCCAACACAAGACAGgtttgacatataataattgaattcatgtagttaggtgcctcttga---tgggttgctgaattttttaacatttaactactaaatttgagagagtttgcacctt
















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|192300194|gb|FG989316.1|FG989316
EST:     AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAG                         GTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
genomic: AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttccct ... gttgttccagGTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
EST: gi|22931879|gb|BU549018.1|BU549018
EST:     AATACAACTACANCTTGGTTGNNNGAGAGGAGGAAGCTAATACAGGACAG                         GTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
genomic: AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttccct ... gttgttccagGTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
EST: gi|213595624|gb|DB977948.1|DB977948
EST:     AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAG                         GTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
genomic: AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttccct ... gttgttccagGTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
EST: gi|7285441|gb|AW597928.1|AW597928
EST:     AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAG                         GTGAGTGTACGAGTTAGAGACTTGGCA
genomic: AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttccct ... gttgttccagGTGAGTGTACGAGTTAGAGACTTGGCA
EST: gi|6341579|gb|AW164403.1|AW164403
EST:     AATACAACTACATCTTTGTTGTTGGAGAGGACGAAGCTAATACAGGACAG                         GTGAGTGTACGAGTTAGAGACTTTGCAGAACATAA
genomic: AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttccct ... gttgttccagGTGAGTGTACGAGTTAGAGACTTGGCAGAACATAA
EST: gi|13478764|gb|BG508107.1|BG508107
EST:     AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAG                         GTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
genomic: AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttccct ... gttgttccagGTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
EST: gi|12773071|gb|BG237998.1|BG237998
EST:     AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAG                         GTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
genomic: AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttccct ... gttgttccagGTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
EST: gi|7145866|gb|AW507788.1|AW507788
EST:     AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAG                         GTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
genomic: AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttccct ... gttgttccagGTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
EST: gi|254320236|gb|GR829424.1|GR829424
EST:     AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAG                         GTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
genomic: AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttccct ... gttgttccagGTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
EST: gi|7590550|gb|AW706300.1|AW706300
EST:     AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAG                         GTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG
genomic: AATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttccct ... gttgttccagGTGAGTGTACGAGTTAGAGACTTGGCAGAACATAAGGTTATGAGTATTGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCGAGAAGCACAATTAGCACAATACAACTACATCTTGGTTGTTGGAGAGGAGGAAGCTAATACAGGACAGgtttttcccttttcccttagtcattaaattaaatttgtagtgtaattagatttcaattctatccccccccccccccccccttctctataaacttctgccc

- - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccttttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctatccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccccccc