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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagctctctgtctctctctctccccccccccccccctctcaatctgggcatggcatatgaacaagcaatgctcacagccaggacataattcttactttacagGTGTGGAAGTTGAGCTCATGTGATTTATGTGAGATTGCCCGTAATTCAGTTTATCAATCAGGTTTCTCACATGCTTTAAAG

Basic information

species Glycine max
transcript GLYMA01G29470.2
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G29470.2 (Glycine max), 3'ss of exon 17
lower sequence: Vv08s0105g00570.t01 (Vitis vinifera), 3'ss of exon 16
gtgagctctctgtctctctctctccccccccccccccctctcaatctgggcatggcatatgaacaagcaatgctcacagccaggacataattcttactttacagGTGTGGAAGTTGAGCTCATGTGATTTATGTGAGATTGCCCGTAATTCAGTTTATCAATCAGGTTTCTCACATGCTTTAAAG
|| |||||||| |||||||||||| | | |  ||         ||| ||| ||     ||  |       | ||       | || | | | || |  || ||||| |||| | |||| ||||| ||||||||||| ||||||||||||||||| || ||||||||||||||||||||| | |||
gtaagctctctctctctctctctctctctcttcc---------atcagggtattagggattgat--ctggtactt-tgtttatgata-attcctcatcttgcagGTATGGAGGCTGAGTTCATGCGATTTATGTGAAATTGCCCGTAATTCAGTCTACCAATCAGGTTTCTCACATGCTCTGAAG

upper sequence: GLYMA01G29470.2 (Glycine max), 3'ss of exon 17
lower sequence: PP1S77_89V6.1 (Physcomitrella patens), 3'ss of exon 16
gtgagctctctgtctctctctctccccccccccccccctctcaatctgggcatggcatatgaacaagcaatgctcacagccaggacataattcttacttta-cagGTGTGGAAGTTGAGCTCATGTGATTTATGTGAGATTGCCCGTAATTCAGTTTATCAATCAGGTTTCTCACATGCTTTAAAG
               |||| ||    |    |   || | ||   |||        || |  | |    ||  |||     |  | | | || |   | || |||||||||||| ||||||| |||||  | ||||| ||||| || ||||| ||||||||||| ||||||   |||     ||||
--------gtgacgcctctgtccgatctgttcttgccgtatctgactgaattcctaatttttagatcatattttcattaatatcatacatttttctgtgtatcagGTGTGGAAGCTGAGCTCCTGTGACCTCTGTGAAATTGCACGCAATTCTGTTTATCAATCGGGTTTCAATCATAGAACAAAG

upper sequence: GLYMA01G29470.2 (Glycine max), 3'ss of exon 17
lower sequence: PP1S307_76V6.1 (Physcomitrella patens), 3'ss of exon 16
gtgagctctctgtctctc-tctctccccccccccccccctctcaatctgggcatggcatatgaacaagcaatgct-cacagccaggacataattcttactttacagGTGTGGAAGTTGAGCTCATGTGATTTATGTGAGATTGCCCGTAATTCAGTTTATCAATCAGGTTTCTCACATGCTTTAAAG
        | ||| |    | | |          |      | ||  |    ||| ||  | |    | | |  | || ||  | ||   |  |      ||  ||||||||||||||||  | |||||| | |||||||||||  | ||||||||||||||||| || || || ||||  |  || 
------attttgtttgaaatatttggtgtgatttcaaataataaaattaaaaatgacacttcaggttgtatttttacatagaaaagattgaggtggggtattttagGTGTGGAAGTTGAGTGCCTGTGATCTTTGTGAGATTGCAAGAAATTCAGTTTATCAATCTGGGTTTTCTCATGAGTCCAAA

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|254332341|gb|GR846386.1|GR846386
EST:     -TCACTTAACAAAGGAACCATTGGTTGAAGAATATAGCATAGCTGCTTCT                         GTGTGGAAGTTGAGCTCATGTGATTTATGTGAGATTGCCCGTAATTCAGTT
genomic: TTCACTTAACAAAGGAACCATTGGTTGAAGAATATAGCATAGCTGCTTCTgtgagctctc ... tactttacagGTGTGGAAGTTGAGCTCATGTGATTTATGTGAGATTGCCCGTAATTCAGTT
EST: gi|26267857|gb|CA818920.1|CA818920
EST:     TTGGTTGAAGAATATAGCATAGCTGCTTCT                         GTGTGGAAGTTGAGCTCATGTGATTTATGTGAGATTGCCCGTAATTCAGTT
genomic: TTGGTTGAAGAATATAGCATAGCTGCTTCTgtgagctctc ... tactttacagGTGTGGAAGTTGAGCTCATGTGATTTATGTGAGATTGCCCGTAATTCAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatggcatatgaacaagcaatgctcacagccaggacataattcttactttacagGTGTGGAAGTTGAGCTCATGTGATTTATGTGAGATTGCCCGTAATTCAGTTTATCAATCAGGTTTCTCACATGCTTTAAAG
                                         ttcttac  putative branch site (score: 2)
                                         ttcttacttt  CT-rich tract
                                     ataattcttacttta  TA-rich tract