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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAATGTCTATAAGTGGTGGAAACCAGGTGGGAAGTTAGTTCTGAATTTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGGgtatgtgtttcttttaaatgagaatttgctaccttcctgtgatctcttttactcctatttccgctagtcaagggggttttgcatgatgaataaagctaat...

Basic information

species Glycine max
transcript GLYMA16G21960.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G21960.2 (Glycine max), 5'ss of exon 7
lower sequence: Vv04s0044g01940.t01 (Vitis vinifera), 5'ss of exon 7
TCAAATGTCTATAAGTGGTGGAAACCAGGTGGGAAGTTAGTTCTGAATTTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGGgtatgtgtt---tcttttaaatgagaatttgctaccttcctgtgatctcttttactcctatttccgctagtcaagggggttttgcatgatgaataaagctaat
||    |||||||||||||||||||| |||||||| ||    ||| | ||| | || ||| |||||||  ||||  | |  ||||||||||| ||||||||||  |    || | |   |   | ||   ||  ||  |  ||   ||||   | ||   ||    ||| |      || | ||  | ||| ||||  |  
TCTCGCGTCTATAAGTGGTGGAAACCTGGTGGGAACTTGTACCTGCAATTTTCTAGAGCTATCAAGTTTACCCCCATTTTCTTTTGGGGAATATTTGGgtatgcataaaatcgtctctctttcatttacttattttaataagaaacctttattttctgcatctag-agttatttcttttcttcaataggaaaaaaggaa--
















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|11274206|gb|BF324574.1|BF324574
EST:     TTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTAGGGGA-TTCTTTGG                         ATATGCGATACCC
genomic: TTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATT-TTTGGgtatgtgttt ... ttctcttcagATCTCCGATACCC
EST: gi|31305285|gb|CD390488.1|CD390488
EST:     AGTATATTTTTGGGGAATTTTTGG                         ATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
genomic: AGTATATTTTTGGGGAATTTTTGGgtatgtgttt ... ttctcttcagATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
EST: gi|20497895|gb|BQ272825.1|BQ272825
EST:     TTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGG                         ATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
genomic: TTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGGgtatgtgttt ... ttctcttcagATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
EST: gi|31561365|gb|CD487203.1|CD487203
EST:     TTTGCGAGGGCTGTCAAG-TCTCCCCAGTATATTTTTGGGGAATTTTTGG                         ATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
genomic: TTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGGgtatgtgttt ... ttctcttcagATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
EST: gi|7588080|gb|AW703883.1|AW703883
EST:     GTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGG                         ATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
genomic: GTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGGgtatgtgttt ... ttctcttcagATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
EST: gi|298194793|gb|HO043265.1|HO043265
EST:     TTTGCGAGGGCTGTCAAGTTCCCCCCAGTATATTTTTGGGGAATTTTTGG                         ATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
genomic: TTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGGgtatgtgttt ... ttctcttcagATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
EST: gi|7639233|gb|AW733560.1|AW733560
EST:     TTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGG                         ATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
genomic: TTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGGgtatgtgttt ... ttctcttcagATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
EST: gi|6848922|gb|AW351212.1|AW351212
EST:     TTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGN                         ATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT
genomic: TTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGGgtatgtgttt ... ttctcttcagATCTCCGATACCCTTTAAACATCCAATGCATGTGGTAGTGGGTAGACCAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCAAATGTCTATAAGTGGTGGAAACCAGGTGGGAAGTTAGTTCTGAATTTTGCGAGGGCTGTCAAGTTCTCCCCAGTATATTTTTGGGGAATTTTTGGgtatgtgtttcttttaaatgagaatttgctaccttcctgtgatctcttttactcctatttccgctagtcaagggggttttgcatgatgaataaagctaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttcct