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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttttccttattgcactccggctagtcattaatttaagcttcatttttgttttctctctgggaagttgtgacactctcatttaattcagaaacattcagactaattttttcttggatgtttcacatttatggaaaagtaatttttctaatgtcttgtacagATTAAGGAACTGTCTAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCAC

Basic information

species Glycine max
transcript GLYMA09G24100.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G24100.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g55290.2 (Oryza sativa), 3'ss of exon 2
gtgagtttttccttattgcactccggctagtcattaatttaagcttcatttttgttttctctctgggaagttgtgacactctcatttaattcagaaacattcagactaattttttct-tggatgtttcacatttatggaaaagtaatttttctaatgtcttgtacagATTAAGGAACTGTCTAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCAC
                                                                    | || ||     |  ||||   |   | | ||||||||||  |  |  | |  |||  ||   |   || ||   |  || || |    | |  |  || |||| |   |||||||||| || |||||||| ||||| ||||||||||| | |||||| |||||||| ||||| || || ||  |||| || |||||||
-------------------------------------------------------------------catttttgcatgacggattttgctgcaacagattcagactacctggtgttattcatgcctcgagtacctgaaattattgttcttttgtcctttcctgtagGTTAAAGGCTTGTCTAATGTAAAGGAGGAAGTATATGGTGCTCTTGATTCATTTGTTGCATGGGAATTGGAGTTTCCCTTGATAGCAGTAAAGAAGGCAC

upper sequence: GLYMA09G24100.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G105827_T03 (Zea mays), 3'ss of exon 3
gtgagtttttccttattgcactccggctagtcattaatttaagcttcatttttgttttctctctgggaagttgtgacactctcatttaattcagaaacattcagactaattttttcttggatgtttcacatttatggaaaagtaatttttctaatgtcttgtacagATTAAGGAACTGTCTAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCAC
                                                      |  | | | | |||     || |  |  ||  ||  |||    | |   ||| ||||     |||| ||| | | |||     | | || |   || ||   |||  | |||||||| |  ||||||||||| || ||||||||||||||||| ||||| || | |||||| |||||| | ||||| || || ||   ||| || |||||||
------------------------------------------------------tagtttgtgtagga-----tgccttttgcaaata-ctcattttcctatggacaaattcaaa-ttgggtgtctgaaatt-----acatgtcaaacttttatcatctcatgcagATTAAAGGTCTGTCTAATGTAAAGGAGGAAGTTTATGGAGCGCTTGACTCTTTTGTTGCATGGGAACTGGAGTTTCCCTTGATAGTAGTAAAGAAGGCAC

upper sequence: GLYMA09G24100.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G040970_T02 (Zea mays), 3'ss of exon 2
gtgagtttttccttattgcactccggctagtcattaatttaagcttcatttttgttttctctctgggaagttgtgacactctcatttaattcagaaacattcagactaattttttcttggatgtttcacatttatggaaaagtaatttttctaatgtcttgtacagATTAAGGAACTGTCTAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCAC
                                            || || |  | |  || |   | ||||  | |   | |||| |      || ||||||| |           |||| ||| | | |||     | |    |   || ||   ||  || |||||||| |  ||||||||||| || |||||||||||||| || ||||| || | |||||| |||||| | ||||| || || ||   ||| || |||||||
------------------------------------------agtttatgtaggatgcctttt--gcaagtactaat--tttcatatgg----gacacattcaaa-----------ttgggtgtctgaaatt-----atacaccaaacttttatcatcccgtgcagATTAAAGGTCTGTCTAATGTAAAGGAGGAAGTTTATGGGGCACTTGACTCATTTGTTGCATGGGAACTGGAGTTTCCCTTGATAGTAGTAAAGAAGGCAC

upper sequence: GLYMA09G24100.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G21190.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagtttttccttattgcactccggctagtcattaatttaagcttcatttttgttttctctctgggaagttgtgacactctcatttaattcagaaacattcagactaattttttcttggatgtttcacatttatggaaaagtaatttttctaatgtcttgtacagATTAAGGAACTGTCTAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCAC
                                                                                             | ||   ||    | || | || |||  |  | ||   |  |  | |  || |   | |  | |  | | ||||| || | | |||| ||||| ||||| |||||||||||||| ||||||||||   ||||||||||||||||||||||| |  ||| ||| || |||||| 
---------------------------------------------------------------------------------------------gtaatgctctc-ttcatatgtttttgtgttctgcaatctcttttagagttagtgagtattgt-taatctgcagATAAAAGGATTGTCGAATGTTAAAGAAGAAGTTTATGGAGCGCTTGATTCCTTCATTGCTTGGGAATTAGAGTTCCCTCTTGTTATAGTTAAGAAGGCAT

upper sequence: GLYMA09G24100.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0050g01450.t01 (Vitis vinifera), 3'ss of exon 3
------------------------gtgagtttttccttattgcactccgg------ctagtcattaatttaagcttcatttttgttttctct-ctgggaagttgtgacactctcatttaattcagaaacattcagactaattttttc-ttggatgtttcacatttatggaaaagtaatttttctaatgtct---tgtacagATTAAGGAACTGTCTAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCAC
                         || ||||| |   ||   |   |         || ||  | | |  | |  | |   ||||  |  | | | ||| || |||   |||     || |    ||  || |   || |||||   || ||| || || ||||      | ||   | ||      |||   | |  |||| ||||   | || ||||||||||||||||||||||| ||||||||||| |   |||||||||| || || ||||||||||| |||||||| || ||  
gtaagcttttctttcatttgaattctgggttttactgcatatgatgtcaagagctcttattccctgaatggatcgacttaaatgttgccaatacagagaaattttgattgtctagagaaactttacaat-tttattttattttttaaatttgatcttgcaaatttgaattgatgtgtgtattgggggatctatttatgtagATAAAGGGGTTATCAAATGTCAAAGAGGAAGTTTATGGGGCTCTTGATTCTTTCATTGCTTGGGAGTTGGAATTCCCTTTAATCACAGTGAAGAAAGCTT

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|192310105|gb|FK001887.1|FK001887
EST:     CCCATNNNNNNNTTGGGACCATTTCCAAGGCTGCCAAGCTTGTTAAGTCT                         ATTAAGGAACTGTCTAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCC
genomic: CCCATAAAAAAATTGGGACCATTTCCAAGGCTGCCAAGCTTGTTAAGTCTgtgagttttt ... tcttgtacagATTAAGGAACTGTCTAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcttggatgtttcacatttatggaaaagtaatttttctaatgtcttgtacagATTAAGGAACTGTCTAATGTCAAAGAGGAAGTTTATGGAGCTCTTGATTCCTATGTTGCTTGGGAATTAGAGTTCCCTTTAATTACAGTGAAAAAGGCAC
                                     ttctaat  putative branch site (score: 2)
                  atttatggaaaagtaa  TA-rich tract