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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttggaaacttagatttgaattgcaatatgataactttctagctgttacatatacttgtatgttcttacagatactcatagaaagtaaaattgagttgcagATGGAAACATTGAAGATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTGGAAATGTTCTACCATATGTTGGTGTTGCTTGCCTCGGAGCCATTTTATT

Basic information

species Glycine max
transcript GLYMA13G07780.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G07780.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g04190.2 (Oryza sativa), 3'ss of exon 2
---ttggaaacttagatttgaattgcaatatgataactttctagctgttacatatacttgtatgttcttacagatactcatagaaagtaaaattgagttgcagATGGAAACATTGAAGATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTGGAAATGTTCTACCATATGTTGGTGTTGCTTGCCTCGGAGCCATTTTATT---
   | |    | |    |     |    | ||  | |     | |||  |  ||   ||   | |   | | |||  | ||    | ||  ||| | || ||| ||   |   ||| ||| ||      |  |    ||| |  ||||||||||||| |||||| |||||||| || ||||||||  | || || ||||||||   
ttatagtgctcatgcgctcatgcttagttttgcaagccaa--aactggaatgta-gtttaactatatctgctgatcttgatttctaatactatttatttccagTTG---ATCCTGAGGATATTCCATTGGAGAAGGTTCAAGCTAAATCTTCTGGAAGTGTTCTGCCATATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGG

upper sequence: GLYMA13G07780.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 3'ss of exon 2
--------ttggaaacttagatt--tgaattgcaatatgataactttctagctgttacatatacttgtatgttcttacagatactcatagaaagtaaaattgagttgcagATGGAAACATTGAAGATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTGGAAATGTTCTACCATATGTTGGTGTTGCTTGCCTCGGAGCCATTTTATT
        ||   ||  |  |||  | |||  |   |  || |   |   | |  | ||| ||||   || |||||||| |||      | |  |  ||||||||||||| |||| ||||||| ||||||| |    || |||| |||||||||||||||||||  ||| | |||| ||||||||||||||| || ||||| ||| | ||
cgacactattaagaatcttcattgtttaatcacgg-accatgatgcttgggattctccatttact---attttcttacaaata------gcatttggaattgagttgcagGTGGAGACATTGAGGATGTTGATGTCACTGCTCCCCAGGGCAAATCTTCTGGAACAGTTTTGCCATTTGTTGGTGTTGCTTGTCTGGGAGCAATTCTGTT
















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|213605474|gb|DB964613.1|DB964613
EST:     CATTTTCGGGCCCTCCGTTAAGCCCAGATCAGTGAGGGTGATGGCTTCTG                         ATGGAAACATTGAAGATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTG
genomic: CATTTTCGGGCCCTCCGTTAAGCCCAGATCAGTGAGGGTTATGGCTTCTGgtttgtatgc ... tgagttgcagATGGAAACATTGAAGATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTG
EST: gi|209725014|gb|BW663004.1|BW663004
EST:     CATTTTCGGGCCCTCCGTTAAGCCCAGATCAGTGAGGGTGATGGCTTCTG                         ATGGAAACATTGAAGATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTG
genomic: CATTTTCGGGCCCTCCGTTAAGCCCAGATCAGTGAGGGTTATGGCTTCTGgtttgtatgc ... tgagttgcagATGGAAACATTGAAGATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTG
EST: gi|213608297|gb|DB972639.1|DB972639
EST:     CATTTTCGGGCCCTCCGTTAAGCCCAGATCAGTGAGGGTGATGGCTTCTG                         ATGGAAACATTGAAGATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTG
genomic: CATTTTCGGGCCCTCCGTTAAGCCCAGATCAGTGAGGGTTATGGCTTCTGgtttgtatgc ... tgagttgcagATGGAAACATTGAAGATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacatatacttgtatgttcttacagatactcatagaaagtaaaattgagttgcagATGGAAACATTGAAGATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTGGAAATGTTCTACCATATGTTGGTGTTGCTTGCCTCGGAGCCATTTTATT
                ttcttac  putative branch site (score: 2)
                               atagaaagtaaaatt  TA-rich tract