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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcagcaaattcaaattgatttgtctcttgactgtcttttgtctgaacatatgatcattatccctgtaaacagGCTCTATCGAAGATTACATCGACTGGGGCAATGACATTTTGCTTCATCCAAGCCATAGAGGGTGGTCATGGGGCTACCTATGGCAGCATTCTTACTGCAA

Basic information

species Glycine max
transcript GLYMA01G10880.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G10880.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G035928_T01 (Zea mays), 3'ss of exon 3
-----------------gtaagtttcagcaaattcaaattgatttgtctc--ttgactgtcttttgtctgaac--atatgatcattatccctgtaaacagGCTCTATCGAAGATTACATCGACTGGGGCAATGACATTTTGCTTCATCCAAGCCATAGAGGGTGGTCATGGGGCTACCTATGGCAGCATTCTTACTGCAA
                  |  |||  | ||| ||    ||| | ||  ||     |||||| ||  |   |    ||   |     ||   | | | |||||| |||| ||||| || |||||||| ||||||||||| |||||||||||||| || ||  |||| || ||  | ||||| || || || || |   | |
gcagtttcttgtttactatttgttcgatcaagtttgttttggtctgcttcaacccactgtcgttcatagcatttgattcaactggaattgttctgatcagGCTTTATCAAAGATCACTTCGACTGGTGCAATGACATTCTGCTTCATCCAAGCTATTGAACGTGGACAGGGCACCACCTACGGTAGTATCCTGAACTCTA

upper sequence: GLYMA01G10880.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G155422_T01 (Zea mays), 3'ss of exon 3
------------gtaagtttcagcaaattcaaattgatttgtctc----ttgactgtcttttgtctgaacatatga-----tcattatccctgtaaacagGCTCTATCGAAGATTACATCGACTGGGGCAATGACATTTTGCTTCATCCAAGCCATAGAGGGTGGTCATGGGGCTACCTATGGCAGCATTCTTACTGCAA
             |  |||| | ||| ||    ||| | ||  ||    |  |    || |  |    |||| |||     |   |||   | | | |||||| |||| ||| | || |||||||| |||||||||||| ||||||||||||| || ||  |||| || ||  | ||||| || || || || |   | |
tgttattgttgtatttgtttgatcaagtttgttttgctctgcttcaacttcaatccactgtcattcatacatttgattcaattggtattgttctgatcagGCTTTATCAAAGGTCACTTCGACTGGTGCAATGACATTTGGCTTCATCCAAGCTATTGAACGTGGACAGGGCACCACCTACGGTAGTATCCTGAACTCCA
















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|151404758|gb|EV274572.1|EV274572
EST:     TTATCTGCTTCAGTGGATGCGATGATCATCAAACTTCAGCTGATACATCT                         GCTCTATCGAAGATTACATCGACTGGGGCAATGACATTTTGCTTCATCCAA
genomic: TTATCTGCTTCAGTGGATGCGATGATCATCAAACTTCAGCTGATACATCTgtaagtttca ... ctgtaaacagGCTCTATCGAAGATTACATCGACTGGGGCAATGACATTTTGCTTCATCCAA
EST: gi|37995054|gb|CF806643.1|CF806643
EST:     TTATCTGCTTCAGTGGATGCGATGATCATCAAACTTCAGCTGATACATCT                         GCTCTATCGAAGATTACATCGACTGGGGCAATGACATTTTGCTTCATCCAA
genomic: TTATCTGCTTCAGTGGATGCGATGATCATCAAACTTCAGCTGATACATCTgtaagtttca ... ctgtaaacagGCTCTATCGAAGATTACATCGACTGGGGCAATGACATTTTGCTTCATCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgtctcttgactgtcttttgtctgaacatatgatcattatccctgtaaacagGCTCTATCGAAGATTACATCGACTGGGGCAATGACATTTTGCTTCATCCAAGCCATAGAGGGTGGTCATGGGGCTACCTATGGCAGCATTCTTACTGCAA
       tcttgac  putative branch site (score: 3)
                                       ttatccct  putative PPT
                                   atcattat  TA-rich tract