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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

taattgcattcataaatcattatattcttactaatgctttatgacaaggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttaccttgatgttgattctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAAAAGGGAACCATGGCCCAGTATTTCTGAAAGTGCTAAAAGCCTTGTTAGG

Basic information

species Glycine max
transcript GLYMA18G43160.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G43160.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g39090.1 (Oryza sativa), 3'ss of exon 2
taattgcattcataaatcattatattcttactaatgctttatgacaaggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttacc--ttgatgttgattcta--tgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAAAAGGGAACCATGGCCCAGTATTTCTGAAAGTGCTAAAAGCCTTGTTAGG
                                                                                                          ||  | ||| |   |   | | | |  | || | |  |  |   |||  | |  | |   ||  |    |    |  ||||||  |||| |||||||| ||||| || || ||||| |||  ||||||||||||  | ||||||||||||| | ||||||| | |||||||   || ||| | 
---------------------------------------------------------------------------------------------------------gtaccaactttgccttctctttgtgaaaaccttaaatcatttagctttgctcttctgcaaattcttaccaagcaaaattgcagAGACTGAACAAGGAGTGGCACAAGCTATACTTCGTGGAAATATAGATTTTAAGCGAGAACCATGGCCCAATGTTTCTGATAATGCTAAAGATCTAGTTCG-

upper sequence: GLYMA18G43160.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G030673_T01 (Zea mays), 3'ss of exon 2
taattgcattcataaatcattatattcttactaatgctttatgacaaggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttaccttgatgttgattctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAAAAGGGAACCATGGCCCAGTATTTCTGAAAGTGCTAAAAGCCTTGTTAGG
                                                                                     ||| |  ||    ||||||   |  | ||||     ||  ||| | |  |  || | ||              ||||||  | |  | |||    |||||  |||| |||||||||||||| || |||||||| |||  ||||||||||||  | ||||| ||||||| | ||||||| | |||||||   |||||| | 
-------------------------------------------------------------------------------------gtaaaggattttatttgtgagaacaa-cttgtcctctagcattacttttgtgcaaatgag-------------cttaccaag-taataatt----gcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTAAGCGAGAACCCTGGCCCAATGTTTCTGACAATGCTAAAGATCTTGTTCG-

upper sequence: GLYMA18G43160.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0105g00390.t01 (Vitis vinifera), 3'ss of exon 2
taattgcattcataaatcattatattcttactaatgctttatgacaaggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttaccttgatgttgattctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAAAAGGGAACCATGGCCCAGTATTTCTGAAAGTGCTAAAAGCCTTGTTAGG
                                                                       || ||||  ||| |    ||| |  |     || ||| |||| ||  | || |||| |          ||| ||  ||||   |||  |  |     ||    ||  ||||||| ||||| ||||| ||||||||||| |||||||| || || |||||||| |||||||| |||||||| | |||||| || ||||| || || || ||| | 
---------------------------------------------------------------------ggttgctttccttccta---atcctaggtgcaatgttta-gagcctgtctttttttatct---------gtagaaatgctttccctttcat--ctaaagtgagtttttgatgcagAGTCTGAACAAGGGGTTGCACAGGCTATTCTTCGTGGGCTAATAGATTTCAAAAGGGATCCATGGCCAAATATTTCAGAGAGTGCCAAGAGTCTAGTTCG-

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|193492387|gb|FK454797.1|FK454797
EST:     GGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGA                         ATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA
genomic: GGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcatt ... tctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA
EST: gi|9205414|gb|BE331638.1|BE331638
EST:     GGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGA                         ATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA
genomic: GGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcatt ... tctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA
EST: gi|14259396|gb|BG882304.1|BG882304
EST:     ATTGTGTGGTGTTCCCCCATTTTGGGCTGA                         ATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA
genomic: ATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcatt ... tctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcagctcataggaagtctttttattttcttaccttgatgttgattctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAAAAGGGAACCATGGCCCAGTATTTCTGAAAGTGCTAAAAGCCTTGTTAGG
                tctttttattttctta  TA-rich tract