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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggagttgtttgtactactacttggattagaacaagaatattttataactactctgaatttgtgttttaataacaaaaattcatctaagcaatatactgacacatctcacataagcctaaaactattttgctgatatcttatcttcttgttccattaatatggttccctacttacttcttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT

Basic information

species Glycine max
transcript GLYMA10G04300.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G04300.2 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G416069_T01 (Zea mays), 3'ss of exon 9
gtaggagttgtttgtactactacttggattagaacaagaatattttataactactctgaatttgtgttttaataacaaaaattcatctaagcaatat-actgacacatctcacataagcctaaaactattttgctgatatcttatcttcttgttccattaatatggttccctacttacttcttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT
                                                                                        ||||| | | |  |    |    | |||    |     | ||   ||  |  || | ||| |   || || ||     ||      ||  |     ||||||||  | ||| || ||||| || |||||||||||||| ||||||||  ||||||| || ||||| ||||||||||| || |||||  | |||||||| |||
-------------------------------------------------------------------------------------gtaaagcactgttataggggaaatatatatatatttctgcatgttcacctcttgcctcaccttgtgcctcaatcaaatcacttaaaagttttgtggcaatttcagTTTTAGGCCATCACCGTTCTTCATATTGGACGAAGTAGATGCTGCTCTGGACAATTTAAATGTGGCCAAGGTTGCCGGGTTTATCAGATCAAAATCATGT

upper sequence: GLYMA10G04300.2 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G416069_T02 (Zea mays), 3'ss of exon 8
gtaggagttgtttgtactactacttggattagaacaagaatattttataactactctgaatttgtgttttaataacaaaaattcatctaagcaatat-actgacacatctcacataagcctaaaactattttgctgatatcttatcttcttgttccattaatatggttccctacttacttcttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT
                                                                                          ||| | | |  |    |    | |||    |     | ||   ||  |  || | ||| |   || || ||     ||      ||  |     ||||||||  | ||| || ||||| || |||||||||||||| ||||||||  ||||||| || ||||| ||||||||||| || |||||  | |||||||| |||
------------------------------------------------------------------------------------------gcactgttataggggaaatatatatatatttctgcatgttcacctcttgcctcaccttgtgcctcaatcaaatcacttaaaagttttgtggcaatttcagTTTTAGGCCATCACCGTTCTTCATATTGGACGAAGTAGATGCTGCTCTGGACAATTTAAATGTGGCCAAGGTTGCCGGGTTTATCAGATCAAAATCATGT

upper sequence: GLYMA10G04300.2 (Glycine max), 3'ss of exon 18
lower sequence: Vv07s0005g03440.t01 (Vitis vinifera), 3'ss of exon 11
gtaggagttgtttgtactactacttggattagaacaagaatattttataactactctgaatttgtgttttaataacaaaaattcatctaagcaatatactgacacatctcacataagcctaaaactattttgctgatatcttatcttcttgttcc--attaatatggtt-----ccctacttacttcttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT
                                                                                              |||| |    | | |  | | |    || | |  | |  |||| |   |   |    |  |    ||||| | ||        ||   |    | |||||||||| | |||||| || |||||||||||||| ||||| |||||||| ||||||||  |||||||||| ||||||||||| || || || |||||||| |||
----------------------------------------------------------------------------------------------tatatt--tccttttgccttcaaaaaaagattgctcttttgatctgcaaaagttgaataactggctaataggattattatttttatccatgggtggtttcagTTATAGGCCTTCTCCTTTTTTTATATTGGATGAAGTCGATGCTGCATTGGACAATCTGAATGTTGCTAAGGTTGCTGGATTCATCCGATCAAAATCATGT

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|192323291|gb|FK017052.1|FK017052
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttg ... cttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
EST: gi|298174268|gb|HO017604.1|HO017604
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCCCCATTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttg ... cttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
EST: gi|214004496|gb|DB985080.1|DB985080
EST:     TCCATCCATAG                         TTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
genomic: TCCATCCATAGgtaggagttg ... cttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
EST: gi|31472073|gb|CD414101.1|CD414101
EST:     GTTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttg ... cttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
EST: gi|254336329|gb|GR842508.1|GR842508
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttg ... cttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
EST: gi|120493576|gb|EH221743.1|EH221743
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttg ... cttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
EST: gi|31458556|gb|CD400584.1|CD400584
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttg ... cttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
EST: gi|23063907|gb|BU578681.1|BU578681
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATTTGTCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGG
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttg ... cttgtttcagTTACAAG-CCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGG
EST: gi|254336328|gb|GR842507.1|GR842507
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttg ... cttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
EST: gi|22524955|gb|BU083766.1|BU083766
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttg ... cttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
EST: gi|11687513|gb|BF595189.1|BF595189
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtaggagttg ... cttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatatcttatcttcttgttccattaatatggttccctacttacttcttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT
                                    tacttac  putative branch site (score: 1)
                               ttccctacttacttct  CT-rich tract
                     attaatat  TA-rich tract