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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcatattttattttttttttacctttttttgattaaaaactcgagctagatcatattaatttggcatgatagcaaatggagaatgttcttctgctgatgtctggaatattcatcttatcagGCTGTTGGAGGAAATGGTGCTGAGCAGACTGTAGTTAGTGGGTCCATGGAAGTGCTACGTCCTTGTTGGGCTATTGCAACGTCTGGTGTACCAATACGTG

Basic information

species Glycine max
transcript GLYMA01G37580.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G37580.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv04s0023g02750.t01 (Vitis vinifera), 3'ss of exon 11
gttcatattttattttttttttacctttttttgattaaaaactcgagctagatcatattaatttggcatgatagcaaatggagaatgttcttctgctgatgtctggaatattcatcttatcagGCTGTTGGAGGAAATGGTGCTGAGCAGACTGTAGTTAGTGGGTCCATGGAAGTGCTACGTCCTTGTTGGGCTATTGCAACGTCTGGTGTACCAATACGTG
             | | |||||| ||   | |   |   | || ||   |  |  |   |||||  |    |      |  | ||||     |    ||  |      |   | | |    |||  ||||| |||||||||||||| || ||||| || ||||| |||||||||||||| || || ||||||||| ||||||| |||||||||||| | || |
------------gtatctttttatctccatctagatggtagctagaa--aattggtgaaaatttatctacttcatggttaaacaatg-----caatggaaattc----ttcccttttctgtagGTGGTTGGTGGAAATGGTGCTGAACAAACTGTTGTAAGTGGATCCATGGAAGTGCTGCGACCCTGTTGGGCTGTTGCAACCTCTGGTGTACCAGTGCGAG
















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|6069810|gb|AW099416.1|AW099416
EST:     GTGGTCTACATGCTGATATTAATGGTGATGGAGTTCTAGATCATGTGCAG                         GCTGTTGGAGGAAATGGTGCTGAGCAGACTGTAGTTAGTGGGTCCATGGAA
genomic: GTGGTCTACATGCTGATATTAATGGTGATGGAGTTCTAGATCATGTGCAGgttcatattt ... atcttatcagGCTGTTGGAGGAAATGGTGCTGAGCAGACTGTAGTTAGTGGGTCCATGGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatagcaaatggagaatgttcttctgctgatgtctggaatattcatcttatcagGCTGTTGGAGGAAATGGTGCTGAGCAGACTGTAGTTAGTGGGTCCATGGAAGTGCTACGTCCTTGTTGGGCTATTGCAACGTCTGGTGTACCAATACGTG
                         tgctgat  putative branch site (score: 3)
                                          ttcatctt  putative PPT
                                      aatattcatcttat  TA-rich tract