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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcctttttttgggttagcaacaccctacctatgcatatatttttcagatttcctttaatgcattattttatgtttttcatagctgtcatttgaagaagagtggtaaggtgctttttgtcagttatatttgatgatatcatatgaatctgttttgttgcagAGACCAGAAGATTTGTGGGCAATTCATTCCCAACCTGTCTTTCCACGACCTCACAAAAAGGACAATCCTTCTTGGATAGCAATACAAAAGGTACCAATTT

Basic information

species Glycine max
transcript GLYMA08G33560.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G33560.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g23890.2 (Oryza sativa), 3'ss of exon 10
gtattcctttttttgggttagcaacaccctacctatgcatatatttttcagatttcctttaatgcattattttatgtttttcatagctgtcatttgaagaagagtggta-aggtgctttttgtcagttatatttgatgatatcatatgaatctgt-tttgttgcagAGACCAGAAGATTTGTGGGCAATTCATTCCCAACCTGTCTTTCCACGACCTCACAAAAAGGACAATCCTTCTTGGATAGCAATACAAAAGGTACCAATTT
                                                                 ||  |  | |   ||  ||   | |  |    |||  |||  |  |  |   |||| || ||||| || |   ||| || |   |||| | |||||  ||||||||||| ||||||||||||||||| ||    | ||| | ||||  ||||||||||  | | || |||||||||||||| ||| |||||          
---------------------------------------------------------------aaatggtaatgtaccttatatgaatattgtagttagagaagtattttatttaacttttctctgttatgttggggcataacaca---atctatctttgtctcagAGACCAGAGGATTTGTGGGCAATTCACTCAATGCGTGTTTCTCCAAAACCTCACAAACGGAATAACCCTTCTTGGATAGCTATAGAAAAG----------

upper sequence: GLYMA08G33560.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 10
gtattcctttttttgggttagcaacaccctacctatgcatatatttttcagatttcctttaatgcattattttatgtttttcatagctgtcatttgaagaagagtggtaaggtgct-ttttgtcagttatatttgatgata-tcatatgaatctgttttgttgcagAGACCAGAAGATTTGTGGGCAATTCATTCCCAACCTGTCTTTCCACGACCTCACAAAAAGGACAATCCTTCTTGGATAGCAATACAAAAGGTACCAATTT
                                                              | |    |||||   ||| | | ||| |      |  |||  ||  |   | || |||  |||  ||    |||||  | | ||||   || |||||     ||||||||||||||||||||||||| || || ||||||||||| |||   |||||||| ||| | ||  |||||||||||||||||||||||          
--------------------------------------------------------------ttcccctttttagtctttgctttgctatatgaccagtaaggatgagatccttctatttcttcaagtacggctgatgcaacttatattgttccgtttt----tagAGACCAGAAGATTTGTGGGCAATCCACTCTCAACCTGTCTTCCCAAAGCCTCACAAGAAGAATAACTCTTCTTGGATAGCAATACAAAAG----------
















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|31306491|gb|CD391694.1|CD391694
EST:     GAAAATGTTGATGAAGCTGTCCGAGAACTTCCAGATGCCAACTTG--A-G                         A--CCAGAAGATTTGTGGGCAATTCATTCCCAACCTGTCTTTCCACGACCT
genomic: GAAAATGTTGATGAAGCTGTCCGAGAACTTCCAGATGCCAACTTGGTAAGgtattccttt ... tttgttgcagAGACCAGAAGATTTGTGGGCAATTCATTCCCAACCTGTCTTTCCACGACCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtgctttttgtcagttatatttgatgatatcatatgaatctgttttgttgcagAGACCAGAAGATTTGTGGGCAATTCATTCCCAACCTGTCTTTCCACGACCTCACAAAAAGGACAATCCTTCTTGGATAGCAATACAAAAGGTACCAATTT
                    atttgat  putative branch site (score: 5)
                                        tctgtttt  putative PPT
                ttatatttgatgatat  TA-rich tract