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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcacattatgattcaggcttaggttcaataaccaattaaagatgagggtttgagtttctcaggatagtctcagctatgaaatacacccttcaagcttccctcagctcaattttattcgttttacttagcttgtttatttgaccaaaggatacctttttgaaatttgcagCTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGAATCGATGACTTCCGGAAAATGCCTAATGGTGTCAATG

Basic information

species Glycine max
transcript GLYMA14G04030.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G04030.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G12200.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttcacattatgattcaggcttaggttcaataaccaattaaagatgagggtttgagtttctcaggatagtctcagc-tatgaaatacacccttcaagcttccctcagctcaattttattcgttttacttagcttgtttatttgaccaaaggatacctttttgaaatttgcagCTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGAATCGATGACTTCCGGAAAATGCCTAATGGTGTCAATG
                                                        ||||||     |  || | |   || || || |   ||  |    |  |    ||||  |  |  | | | || | |   ||| | |          ||      | |  | ||||||| |||||||||||||| ||  | || ||||| || ||||||||||  ||| | ||||| ||||| | ||| ||||||||||| ||||
--------------------------------------------------------gtttctt----tcctcgctgtgcataaactagagaattgcatgacctgtagcatcaaaatgttaagatcttctaaacacctttttctccttt-----tattgggataatctctgcagCTTGTAGGAACTGATCACTGCACTTTCAATTCTACACAAAAAGCTCTAGGACTTGATGATTTCCGCAGAATACCTAATGGTGTTAATG

upper sequence: GLYMA14G04030.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 8
gtttcacattatgattcaggcttaggttcaataaccaattaaagatgagggtttgagtttctcaggatagtctcagctatgaaatacacccttcaagcttccctcagctcaattttattcgttttacttagcttgtttatttgaccaaaggatacctttttgaaatttgcagCTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGAATCGATGACTTCCGGAAAATGCCTAATGGTGTCAATG
                                                   | |   ||    |||||| | |      | ||  | |  ||| |   |        || ||  | ||   ||| | ||  |||    ||          ||| | |||    | ||||||||| ||||| ||||||||||||||||| |||||||| || ||||||  |||||| ||||| ||||| ||||| ||||||||||||||||
---------------------------------------------------tctacattg---aggataatgttgatcctaaagcataatcttgatattgtt----acttaaagtgatc--tttgaattttctttcccat----------gatgcgtttcc--attttgcagCTTGTAGGGACTGATCATTGTGCCTTCAATTCCACACAGAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATG
















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|12773716|gb|BG238643.1|BG238643
EST:     GAGGACATGATAAGGCCCTTCAAGCTGCCCTTTCAACCGGCGTTTTGCAG                         CTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGA
genomic: GAGGACATGATAAGGCCCTTCAAGCTGCCCTTTCAACCGGCGTTTTGCAGgtttcacatt ... aaatttgcagCTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGA
EST: gi|8826144|gb|BE209804.1|BE209804
EST:     GAGGACATGATAAGGCCCTTCAAGCTGCCCTTTCAACCGGCGTTTTGCAG                         CTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGA
genomic: GAGGACATGATAAGGCCCTTCAAGCTGCCCTTTCAACCGGCGTTTTGCAGgtttcacatt ... aaatttgcagCTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGA
EST: gi|14989991|gb|BI315664.1|BI315664
EST:     GAGGACATGATAAGGCCCTTCAAGCTGCCCTTTCAACCGGCGTTTTGCAG                         CTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGA
genomic: GAGGACATGATAAGGCCCTTCAAGCTGCCCTTTCAACCGGCGTTTTGCAGgtttcacatt ... aaatttgcagCTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgttttacttagcttgtttatttgaccaaaggatacctttttgaaatttgcagCTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGAATCGATGACTTCCGGAAAATGCCTAATGGTGTCAATG
                     atttgac  putative branch site (score: 4)
                                       tttttgaaattt  TA-rich tract