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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaagtgcttttactttccaatataaaataaaacaatatgattgttttgttttgttattgtgattgtgattgtaacttgcaagtaaagttgtgattgcagATTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAG

Basic information

species Glycine max
transcript GLYMA03G16660.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G16660.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G79210.1 (Arabidopsis thaliana), 3'ss of exon 1
---tcaagtgcttttactttccaatataaaataaaacaatatgattgttttgttttgttattgtgattgtgattgtaacttgcaagtaaagttgtgattgcagATTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAG
   |    | | ||||  ||  || ||     |  |  |   ||||    |     |||  |    ||       | ||          | || |    ||    | | ||  |||||   |||||||| |||||||| ||||||||||||||||| || ||
ggtttcttttcatttaagtttgaacattgttgatgaagaacagatttagcttccacgtttctaaatttccagagatgacactatttcgcattttttgcagCTTGATTTAGT-TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAG

upper sequence: GLYMA03G16660.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G79210.3 (Arabidopsis thaliana), 3'ss of exon 1
------------------tcaagtgcttttactttccaatataaaataaaacaat----atgattgttttgttttgttattgtgattgtgattgtaacttgcaagtaaagttgtga-----ttgcagATT--CTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAG
                  |||   |   || |||| || | |||  |  |||| |    ||||        ||| | |     | || | | | |     |     |   ||  |      |||||| ||   ||    |||||   |||||||| |||||||| ||||||||||||||||| || ||
ttcagtctacttacttgctcagacgtggtttcttttca-tttaagtttgaacattgttgatgaagaacagatttagcttccacgtttctaaatttccagagATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAG

upper sequence: GLYMA03G16660.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G16470.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------------------------------------------------tcaagtgctttt--actttccaat-ataaaataaaacaatatgattgttttgttttgttattgtga--ttgtgattgtaacttgcaagtaaa----------------gttgtgattgcagATT---CTTGTGCGGTTTA----TCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAG
                                                                     |||| |  ||||  |   || ||| ||  ||  |||| | |    ||  | ||||  |    ||||  |||  |   | | || |  | |||                ||  || |  ||| ||   ||  |  | || |      ||||| ||||||||||| ||||||||||||||||| || ||
gtaagctattctcttcacagcgctagttcttttccgaagattcgtgtcgatctcaaaaatcccattctatcaaattgtttttaagactctaatgatttaaccaaacca-aaacctgaatcgtttgatcccggtgacgttgaaaccctgaattccggggaaattgatcctactcgtttgtgttgttcacagCTTTCGCTAATTTGCTTAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG

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|151411475|gb|EV281286.1|EV281286
EST:     ACTTTGAGTCACCAGGGCAGCCTCGAAACCTCGTCCA                         ATTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATCCGTTTTCTCTCACC
genomic: ACTTTGAGTCACCAGGGCAGCCTCGAAACCTCGTCCAgtaagtgttt ... gtgattgcagATTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACC
EST: gi|208112151|gb|GD912822.1|GD912822
EST:     AGTCCCTACTTCCACTTTGAGTCACCAGGGCAGCCTCGAAACCTCGTCCA                         ATTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACC
genomic: AGTCCCTACTTCCACTTTGAGTCACCAGGGCAGCCTCGAAACCTCGTCCAgtaagtgttt ... gtgattgcagATTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACC
EST: gi|9899371|gb|BE608339.1|BE608339
EST:     AGTCCCTACTTCCACTTTGAGTCACCAGGGCAGCCTCGAAACCTCGTCCA                         ATTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACC
genomic: AGTCCCTACTTCCACTTTGAGTCACCAGGGCAGCCTCGAAACCTCGTCCAgtaagtgttt ... gtgattgcagATTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttttgttattgtgattgtgattgtaacttgcaagtaaagttgtgattgcagATTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAG
                        ttgtaac  putative branch site (score: 2)
     tttgttatt  TA-rich tract