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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttattcattttatgttacactcttaccttataatttggcctcatctttattaaatatctgtatctttatttgataccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTTACGTTGGAAAATGGCCTGTTGACTCCGACATTCAAG

Basic information

species Glycine max
transcript GLYMA20G28200.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G28200.1 (Glycine max), 3'ss of exon 21
lower sequence: AT3G05970.1 (Arabidopsis thaliana), 3'ss of exon 21
gtaagttattcattttatgttacactcttacct-tataatttggcctcatctttattaaatatctgtatc--tttatttgata--------ccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTTACGTTGGAAAATGGCCTGTTGACTCCGACATTCAAG
    |  || ||| | |    ||| | ||   | ||| | || |   |   | |   ||| ||    ||   |||   |||||           || || ||||||| || || || | ||| || || || |||||||| |||||||||||  ||||||||||| ||||||||||||| ||||||
----gcaatacatctcagaaaacaattttctgtatatcagttagttactattctcaaaaacatgatgattgatttggatgataaaaatgtttggtgcagTTGAGAGGCTTCGAGTTTGCAAAGGCTGTGACATTGGTGCTGGAACCATTTACTCTGGAAAATGGCTTGTTGACTCCGACGTTCAAG

upper sequence: GLYMA20G28200.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv05s0020g03080.t01 (Vitis vinifera), 3'ss of exon 21
----------------------------gtaagttattcatttta-------tgttacactcttaccttataatttggcctcatc---tttattaaatatctgtatctt-tatttgataccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTTACGTTGGAAAATGGCCTGTTGACTCCGACATTCAAG
                            | ||  | ||  | | |       ||||| |  |  | ||| || |||  |    |    ||  ||   | | | ||| || | |    | | ||| || |||||||||||||||| |  ||||| || ||||||||||| |||||||||||  |||| ||||  ||| | ||||| |||||||||
gtaatctatctcatctctcataagaaaagaaacatttttgtctgaacaaaaatgttaaaaccagatcttctagtttcacaatgtgcagttcttttcttctatttattttatgtacatttcactgcagTTGAGAGGTTTTGAATTTGCCAAAGCTGTGACTTTGGTGCTTGAACCATTTACCATGGACAATGATCTGCTTACTCCAACATTCAAG
















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|10231873|gb|BE800761.1|BE800761
EST:     CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTNTGGTGCTCGAACCATNT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|9984323|gb|BE658431.1|BE658431
EST:     CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|6482302|gb|AW201571.1|AW201571
EST:     CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|6724335|gb|AW308734.1|AW308734
EST:     GATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: GATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|8286445|gb|BE024013.1|BE024013
EST:     CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|21479843|gb|BQ576526.1|BQ576526
EST:     CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|22928570|gb|BU545709.1|BU545709
EST:     CAAGGGCAGCTGTCNTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|21676461|gb|BQ628812.1|BQ628812
EST:     CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|5761162|gb|AI966525.1|AI966525
EST:     CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGCAAAAGCGGCCACTTTGGTGCTCGTAACCATT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCG-AACCATT
EST: gi|192324238|gb|FK018209.1|FK018209
EST:     CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|208299583|gb|GE097122.1|GE097122
EST:     GCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAAGCGGTCACTTTGGTGCTCGAACCATT
genomic: GCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGT-AAAAGCGGTCACTTTGGTGCTCGAACCATT
EST: gi|208296976|gb|GE096572.1|GE096572
EST:     GCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: GCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|21993972|gb|BQ785500.1|BQ785500
EST:     CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
EST: gi|6481851|gb|AW201122.1|AW201122
EST:     CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAG                         CTGAGAGGTTNTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT
genomic: CAAGGGCAGCTGTCTTGGCTGAGATGGATGCTGCCGGACGAGAGGCTCAGgtaagttatt ... taccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataatttggcctcatctttattaaatatctgtatctttatttgataccctgtagCTGAGAGGTTTTGAATTCGTAAAAGCGGTCACTTTGGTGCTCGAACCATTTACGTTGGAAAATGGCCTGTTGACTCCGACATTCAAG
                                       atttgat  putative branch site (score: 5)
                 tttattaaatatctgt  TA-rich tract