Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaacactgccggtttctgtgtattatggcccttattttgatttcatccgatataggaaattaaaattgtaaagaagaacatgtactaaggtctcaactttttctgattattgatttgttatttctcttcttaatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTC

Basic information

species Glycine max
transcript GLYMA11G12260.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G12260.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G073571_T03 (Zea mays), 3'ss of exon 5
gtgagtaacactgccggtttctgtgtattatggcccttattttgatttcatccgatataggaaattaaaattgtaaagaagaacatgtactaaggtctcaactttttctgattattgatttgttatttctcttcttaatga-tacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTC
                                                                 ||  |   | ||        |  |||  | |      |||||||   |    || | ||   |   ||  |  |   | |||||||| | ||||||||||||| | |||||||| ||||| ||  |||| |||||||||||||| ||||| ||||||||||||||||| ||  | ||||| |
----------------------------------------------------------------gtatgagcctcaattcatttttacactttgttgctgtttttttcttgcttggaatatattgggttaatttgtcgtatctccagACTCTATACCAAATGTTTATCGTCAATGCTGGTCCGGGCTTCCGGTTACTATGGAACACTGTGAAGTCCTTCCTTGATCCCAAAACGACCGCCAAGATAC

upper sequence: GLYMA11G12260.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 6
gtgagtaacactgccggtttctgtgtattatggcccttattttgatttcatccgatataggaaattaaaattgtaaagaagaacatgtactaaggtctcaactttttctgattattgatttgttatttctcttcttaatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTC
                                                         || ||   | |  || |  | |    | | |  |   || |      ||      |||||  ||  | | |  | |||        |||||||| | ||||||||||||  | |||||||| ||||| ||  || | |||||||||||||| ||||| || |||||||||||||| ||  | ||||| |
--------------------------------------------------------gtatgagcctcattttttttacactctcttttgtt---gtttttttgcttggaatatattgggttaatttgttgcatctc-------cagACTCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATAC

upper sequence: GLYMA11G12260.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G21520.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgagtaacactgccggtttctgtgtattatggcccttattttgatttcatccgatataggaaattaaaattgtaaagaagaacatgtactaaggtctcaactttttctgattattgatttgttatttctcttcttaatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTC
                                                     |   |||  ||||  |  |   || |    | ||  || |||| |||| |    || ||  | | |||||  | | ||         || |||||||||  |||||||||||| || ||||| || || ||||||||| | || |||||||||||||||   || ||||| || || ||| || | || ||||
-----------------------------------------------------gtattagttaattggagcttctaata----cttgatctcaggtatcaaatg---ctaatcttggctttgtggtatttc---------atgcagACTCTCCACCAAATGTTTATTATCAATGCAGGGCCTGGATTTAGGCTACTCTGGAACACTGTCAAGAGCTTTCTTGACCCTAAGACATCTGCTAAAATTC

upper sequence: GLYMA11G12260.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 6
gtgagtaacactgccggtttctgtgtattatggcccttattttgatttcatccgatataggaaattaaaattgtaaagaagaacatgtactaaggtctcaactttttctgattattgatttgttatttctcttcttaatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTC
                                |   | |   |  ||||    || ||   ||  || | ||||||   |   ||      |        |||   | ||     ||  |  | |  ||||||   | || | ||||||||||||||||||||||| || |||||||| || || |||||| |||| ||||||||||| ||| |||| || ||||||||||||||||| |||||||
--------------------------------gtattcaacctt-tttctgttgacatgataagctatagttgtaatccatttcaaaattgatataggtgactgaatatgtgccctggatcttgaactctctta--actgctgcagACTCTCTGCCAAATGTTTATTATCAATGCTGGTCCTGGCTTTAGGCTGCTCTGGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTC

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|193720487|gb|FK657395.1|FK657395
EST:     GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAG                         ACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
genomic: GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAGgtgagtaaca ... aatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
EST: gi|193511296|gb|FK470371.1|FK470371
EST:     GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAG                         ACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
genomic: GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAGgtgagtaaca ... aatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
EST: gi|208266803|gb|GE061918.1|GE061918
EST:     GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAG                         ACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
genomic: GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAGgtgagtaaca ... aatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
EST: gi|193404447|gb|FK365356.1|FK365356
EST:     GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAG                         ACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
genomic: GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAGgtgagtaaca ... aatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
EST: gi|15813836|gb|BI786111.1|BI786111
EST:     GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAG                         ACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
genomic: GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAGgtgagtaaca ... aatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
EST: gi|8284166|gb|BE021725.1|BE021725
EST:     GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAG                         ACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
genomic: GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAGgtgagtaaca ... aatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
EST: gi|193495792|gb|FK462880.1|FK462880
EST:     GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAG                         ACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA
genomic: GGGACCTCATTATGCGGTTACAAAAGATTGATGGTGATAATTACCCTGAGgtgagtaaca ... aatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggtctcaactttttctgattattgatttgttatttctcttcttaatgatacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTC
                                         tcttaat  putative branch site (score: 3)
                               ttatttctcttctta  CT-rich tract
                   attattgatttgttat  TA-rich tract