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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttcctcattgcattccctctagtcgttcctgacattaatttaagcttcaattttgttttctctctgggaagttgtgacattctcatttaattcagaaactttcggactgattttttcttgggtgttttgcatttctagaaaagtaatttttctaatgtcttctacagATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCTC

Basic information

species Glycine max
transcript GLYMA16G29590.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G29590.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g55290.2 (Oryza sativa), 3'ss of exon 2
gtaagtttttcctcattgcattccctctagtcgttcctgacattaatttaagcttcaattttgttttctctctgggaagttgtgacatt-ctcatttaattcagaaactttcggactgattttttct-tgggtgttttgcatttctagaaaagtaatttttctaatgtcttctacagATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCTC
                                                                               || |  |||  |  ||||   |   | |  ||| ||||   |  |  | |   ||  | |  |  ||  ||   |  || || |    | | ||  || |||| |   |||| ||||| || |||||||| ||||| ||||||||||| | |||||| |||||||| ||||| || || ||  |||| || ||||| |
-----------------------------------------------------------------------------catttttgcatgacggattttgctgcaacagattcagactacctggtgttattcatgcctcgagtacctgaaattattgttcttttgtcctttcctgtagGTTAAAGGCTTGTCTAATGTAAAGGAGGAAGTATATGGTGCTCTTGATTCATTTGTTGCATGGGAATTGGAGTTTCCCTTGATAGCAGTAAAGAAGGCAC

upper sequence: GLYMA16G29590.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G105827_T03 (Zea mays), 3'ss of exon 3
gtaagtttttcctcattgcattccctctagtcgttcctgacattaatttaagcttcaattttgttttctctctgggaagttgtgacattctcatttaattcagaaactttcggactgattttttcttgggtgttttgcatttctagaaaagtaatttttctaatgtcttctacagATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCTC
                                                               |  | | | | |||     || | ||  ||  ||  |||    | |  ||||  |||     |||||||| |   ||| |     | || |   || ||   |||  | |||||||| |  ||||| ||||| || ||||||||||||||||| ||||| || | |||||| |||||| | ||||| || || ||   ||| || ||||| |
---------------------------------------------------------------tagtttgtgtagga-----tgccttttgcaaata-ctcattttcctatggacaaattcaaa-ttgggtgtctgaaattac-----atgtcaaacttttatcatctcatgcagATTAAAGGTCTGTCTAATGTAAAGGAGGAAGTTTATGGAGCGCTTGACTCTTTTGTTGCATGGGAACTGGAGTTTCCCTTGATAGTAGTAAAGAAGGCAC

upper sequence: GLYMA16G29590.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G21190.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtttttcctcattgcattccctctagtcgttcctgacattaatttaagcttcaattttgttttctctctgggaagttgtgacattctcatttaattcagaaactttcggactgattttttcttgggtgttttgcatttctagaaaagtaatttttctaatgtcttctacagATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCTC
                                                                                                      | ||   ||    | || | || ||| ||  |      |  |  | |  || |   | |  | |  ||| ||||| || |   |||| ||||| ||||| |||||||||||||| ||||||||||   ||||||||||||||||||||||| |  ||| ||| || |||||  
------------------------------------------------------------------------------------------------------gtaatgctctc-ttcatatgtttttgtgttctgcaatctcttttagagttagtgagtattgt-taatctgcagATAAAAGGATTGTCGAATGTTAAAGAAGAAGTTTATGGAGCGCTTGATTCCTTCATTGCTTGGGAATTAGAGTTCCCTCTTGTTATAGTTAAGAAGGCAT

upper sequence: GLYMA16G29590.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0050g01450.t01 (Vitis vinifera), 3'ss of exon 3
gtaagtttttcct-cattgcattccc---tctagtcgttcctgacattaa-----tttaagcttcaatt---ttgttttctctctgggaagtt--gtgacattctcatttaattcagaaacttt-cggactgatttt--ttcttgggt---gttttgcatttctaga--aaagtaatttttctaatgtct---tctacagATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCTC
||||| ||||| | ||||  | | |    | |    |    |||  | ||      |||  |    | |   | |  ||   | | |  | |   | || ||| | |||   |  ||||||||| |    | |||||  || ||   |    | |||||  | |  |   | ||   | ||      |||   | |  |||| |||| | | |||||||||||||||||||||||||| ||||||||||| |   |||||||||| || || ||||||||||| |||||||| || ||| 
gtaagcttttctttcatttgaattctgggttttactgcatatgatgtcaagagctcttattccctgaatggatcgacttaaatgttgccaatacagagaaattttgattgtctagagaaactttacaattttattttattttttaaatttgatcttgcaaatttgaattgatgtgtgtattgggggatctatttatgtagATAAAGGGGTTATCAAATGTCAAAGAGGAAGTTTATGGGGCTCTTGATTCTTTCATTGCTTGGGAGTTGGAATTCCCTTTAATCACAGTGAAGAAAGCTT

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|151401823|gb|EV271636.1|EV271636
EST:     CCCATNNNNNNNTTGGGACCATTTCCAAGGCTGCCAAGCTTGTTAACTCT                         ATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCC
genomic: CCCATAAAAAAATTGGGACCATTTCCAAGGCTGCCAAGCTTGTTAACTCTgtaagttttt ... tcttctacagATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCC
EST: gi|209707453|gb|BW664912.1|BW664912
EST:     CCCATNNNNNNNTTGGGACCATTTCCAAGGCTGCCAAGCTTGTTAACTCT                         ATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCC
genomic: CCCATAAAAAAATTGGGACCATTTCCAAGGCTGCCAAGCTTGTTAACTCTgtaagttttt ... tcttctacagATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCC
EST: gi|192294951|gb|FG986670.1|FG986670
EST:     CCCATNNNNNNNTTGGGACCATTTCCAAGGCTGCCAAGCTTGTTAACTCT                         ATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCC
genomic: CCCATAAAAAAATTGGGACCATTTCCAAGGCTGCCAAGCTTGTTAACTCTgtaagttttt ... tcttctacagATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcttgggtgttttgcatttctagaaaagtaatttttctaatgtcttctacagATTAAGGAGCTGTCAAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCTC
                                     ttctaat  putative branch site (score: 2)
                                           tgtcttct  CT-rich tract
                  atttctagaaaagtaa  TA-rich tract