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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcctctgccacagccacactattcatattttcctctcaccacatgtttctctagtatttattaaaatgatcacattgttcattcctttcacatcaaacagAGACTGGTTTACGGAGCTAAAGCAGAAGCTGCAATAGCAATTGGATTTGATGATTTCATTGCCGATGCACTGAGGGGCACTGGTTTTTATCAGAAGGCTC

Basic information

species Glycine max
transcript GLYMA20G37210.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G37210.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g14150.6 (Oryza sativa), 3'ss of exon 3
gtgagcctctgccacagccacactattcatattttcctctcaccacatgtttctctagtatttattaaaatgatcacattgttcattcctttcacatcaaacagAGACTGGTTTACGGAGCTAAAGCAGAAGCTGCAATAGCAATTGGATTTGATGATTTCATTGCCGATGCACTGAGGGGCACTGGTTTTTATCAGAAGGCTC
       |||||  | | ||   |    |    |  | |||| ||||  | |||   |  |||||| ||   |    | || | ||||  |||||     |||||| ||||| || ||||| || ||||||||||| || || |||||||||||||| |||||||| ||||| ||||| |||||||| ||||| ||||||||  
------gtctgcacccgtcaattttcctacgcataac-ctcatcacaaatatctgacgattttatttaacaca----actgctaattc--ttcact----acagAGGCTGGTGTATGGAGCCAAGGCAGAAGCTGCCATTGCCATTGGATTTGATGACTTCATTGCAGATGCTCTGAGAGGCACTGGGTTTTACCAGAAGGCCA

upper sequence: GLYMA20G37210.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g61810.1 (Oryza sativa), 3'ss of exon 4
gtgagcctctgccacagccacactattcatattttcctctcaccacatgtttctctagtatttattaaaatgatcacattgttcattcctttcacatcaaacagAGACTGGTTTACGGAGCTAAAGCAGAAGCTGCAATAGCAATTGGATTTGATGATTTCATTGCCGATGCACTGAGGGGCACTGGTTTTTATCAGAAGGCTC
          |  |   ||  ||  ||  |||  | | |     | |      | |||  |||  | || | |  | ||| |||| | ||   |       ||||| ||||| || ||||| || ||||||||||| || || |||||||| ||||| |||||||| |||||  ||||||| |||| ||  || ||||||||  
----------gttagttccttacc-ttattatggttcacctggaagaa-----tgtagcttttgcttaattaacaatatttttcaatgctgcaatg-----cagAGGCTGGTGTATGGAGCCAAGGCAGAAGCTGCTATTGCCATTGGATTCGATGACTTCATTGCTGATGCTTTGAGGGGAACTGCTTACTACCAGAAGGCCA

upper sequence: GLYMA20G37210.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G840909_T02 (Zea mays), 3'ss of exon 4
gtgagcctctgccacagccacactattcatattttcctctcaccacatgtttctctagtatttattaa-aatgatcacattgttcattcctttcacatcaaacagAGACTGGTTTACGGAGCTAAAGCAGAAGCTGCAATAGCAATTGGATTTGATGATTTCATTGCCGATGCACTGAGGGGCACTGGTTTTTATCAGAAGGCTC
                    |   | | | || ||| ||  |  | | |  | | | |    | |||   ||    |  ||||||| | || |         ||||| ||||| || ||||| || |||||||||||||| || ||||||||||||||||||||||| ||||| || || || ||||| |  |||||||||||  
------------gttgatttcttaacttacatattcttcatatgata-gaatatatggagcatgttactgatagcaatcttgttcaatgctgtactg-----cagAGGCTGGTGTATGGAGCCAAGGCAGAAGCTGCAATTGCCATTGGATTTGATGATTTCATTGCTGATGCTCTCAGAGGAACTGGGTACTATCAGAAGGCCA

upper sequence: GLYMA20G37210.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G008216_T04 (Zea mays), 3'ss of exon 2
gtgagcctctgccacagccacactattcatattttcctctcaccacatgtttctctagtatttattaaaatgatcacat-tgttcattcctttcacatcaaacagAGACTGGTTTACGGAGCTAAAGCAGAAGCTGCAATAGCAATTGGATTTGATGATTTCATTGCCGATGCACTGAGGGGCACTGGTTTTTATCAGAAGGCTC----------------------------------------------------------------
    |    | |   |        | | ||    |    | |  |    |  ||  ||  | |       ||   | |  ||   | |||| |  ||    |||||| |||||||| || || || ||||| ||||| || || |||||||||||||| |||||||| ||||| ||||| |||||||| || || ||||||||                                                                  
----gttcgtactttactgttctgactgattgcctaaaatgattaagcatagctggagcttattgagtgttgtctaaacatgcctactcctcttgca----acagaggctggtttatggggccaaggcagaggctgccatcgccattggatttgatgacttcattgcagATGCTCTGAGAGGCACTGGGTTCTACCAGAAGGCCAACTTGGAGATCAAGAAAGCTGACGGCAATGGTGCATTGATCGCTGAGCAAGTCTTTGAAAAGAC

upper sequence: GLYMA20G37210.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G008216_T02 (Zea mays), 3'ss of exon 1
gtgagcctctgccacagccacactattcatattttcctctcaccacatgtttctctagtatttattaaaatgatcacat-tgttcattcctttcacatcaaacagAGACTGGTTTACGGAGCTAAAGCAGAAGCTGCAATAGCAATTGGATTTGATGATTTCATTGCCGATGCACTGAGGGGCACTGGTTTTTATCAGAAGGCTC
    |    | |   |        | | ||    |    | |  |    |  ||  ||  | |       ||   | |  ||   | |||| |  ||    |||||| |||||||| || || || ||||| ||||| || || |||||||||||||| |||||||| ||||| ||||| |||||||| || || ||||||||  
----gttcgtactttactgttctgactgattgcctaaaatgattaagcatagctggagcttattgagtgttgtctaaacatgcctactcctcttgca----acagAGGCTGGTTTATGGGGCCAAGGCAGAGGCTGCCATCGCCATTGGATTTGATGACTTCATTGCAGATGCTCTGAGAGGCACTGGGTTCTACCAGAAGGCCA

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|27426215|gb|CA937735.1|CA937735
EST:     GCGAGCCTTGTCCAATGTGCTTTGGTGCAATTCATCTTTCAAGAATTAAG                         AGACTGGTTTACGGAGCTAAAGCAGAAGCTGCAATAGCAATTGGATTTGAT
genomic: GCGAGCCTTGTCCAATGTGCTTTGGTGCAATTCATCTTTCAAGAATTAAGgtgagcctct ... catcaaacagAGACTGGTTTACGGAGCTAAAGCAGAAGCTGCAATAGCAATTGGATTTGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctctagtatttattaaaatgatcacattgttcattcctttcacatcaaacagAGACTGGTTTACGGAGCTAAAGCAGAAGCTGCAATAGCAATTGGATTTGATGATTTCATTGCCGATGCACTGAGGGGCACTGGTTTTTATCAGAAGGCTC
                                ttcattcctttcac  CT-rich tract
         tatttattaaaatgat  TA-rich tract