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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGACTTTGGTTTCAAGCACATTCTCTGGGTATACAGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAGgtgaggcaataaacaatcaaaagttatccttaatctacttggggctgtacagtcataaattcaaatagcttgcctttactcatacag

Basic information

species Glycine max
transcript GLYMA02G45610.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G45610.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S90_95V6.1 (Physcomitrella patens), 5'ss of exon 7
ATGACTTTGGTTTCAAGCACATTCTCTGGGTATACAGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAGgtgaggcaataaacaatcaaaagttatccttaatctacttggggctgtacagtcataaattcaaatagcttgcctttactcatacag-------------------------------------------
| |||||||| ||| ||||| |||| ||||| |||||||| ||| | || |||||||||||||| ||||||  |   || || ||||     |||         |    |    || ||  | |   |  |      || |    |   | | ||     |||  | | ||                                            
AGGACTTTGGCTTCGAGCACCTTCTATGGGTCTACAGTGGACGCCGTGGAGTTCATTGTTGGGTGTGTGATACACGAGCAAGGAGgt----taatgcttttctcagtacttcatttcatg-attcacgatttccagatcctgttctttgagatctctttattatccttgcaagcatgacatgcaatcttagtgtgttactctgttgcatgtgcag
















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|192323691|gb|FK015997.1|FK015997
EST:     AGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAG                         GTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
genomic: AGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAGgtgaggcaat ... actcatacagGTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
EST: gi|208041747|gb|GD843463.1|GD843463
EST:     TGGGTCTGTGATGGAAAGGCGAGAAG                         GTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
genomic: TGGGTCTGTGATGGAAAGGCGAGAAGgtgaggcaat ... actcatacagGTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
EST: gi|208146996|gb|GD950613.1|GD950613
EST:     TCTGTGATGGAAAGGCGAGAAG                         GTTGACAAATGAGCAAAGAGGAGCTATTGCTGAC-ATTTTCGTGTCTACAA
genomic: TCTGTGATGGAAAGGCGAGAAGgtgaggcaat ... actcatacagGTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
EST: gi|4282637|gb|AI440556.1|AI440556
EST:     GTTGGGTCTGTGATGGAAAGGCGAGAAG                         GTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
genomic: GTTGGGTCTGTGATGGAAAGGCGAGAAGgtgaggcaat ... actcatacagGTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
EST: gi|19271064|gb|BM887320.1|BM887320
EST:     AGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAG                         GTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
genomic: AGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAGgtgaggcaat ... actcatacagGTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
EST: gi|192323617|gb|FK017483.1|FK017483
EST:     AGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAG                         GTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
genomic: AGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAGgtgaggcaat ... actcatacagGTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
EST: gi|151404405|gb|EV274215.1|EV274215
EST:     GGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAG                         GTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
genomic: GGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAGgtgaggcaat ... actcatacagGTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
EST: gi|208080975|gb|GD873831.1|GD873831
EST:     AAAGGCGAGAAG                         GTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
genomic: AAAGGCGAGAAGgtgaggcaat ... actcatacagGTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
EST: gi|19271087|gb|BM887343.1|BM887343
EST:     AGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAG                         GTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
genomic: AGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAGgtgaggcaat ... actcatacagGTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
EST: gi|193638162|gb|FK586656.1|FK586656
EST:     TCTGTGATGGAAAGGCGAGAAG                         GTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA
genomic: TCTGTGATGGAAAGGCGAGAAGgtgaggcaat ... actcatacagGTTGACAAATGAGCAAAGAGGAGCTATTGCTGACTATTTTCGTGTCTACAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGACTTTGGTTTCAAGCACATTCTCTGGGTATACAGTGGTCGCAGAGGTGTTCATTGTTGGGTCTGTGATGGAAAGGCGAGAAGgtgaggcaataaacaatcaaaagttatccttaatctacttggggctgtacagtcataaattcaaatagcttgcctttactcatacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA