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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttcttttaatctgaatttcagatgttctcctattgataatgcctctgttactggataacttggatcaatgtacaatgttccagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTAAATGCCCCAATCCCCCCTGGTGCCAGTTTTGGTTATAGACCAGGGGAGTGGG

Basic information

species Zea mays
transcript GRMZM2G132060_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G132060_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA13G25110.1 (Glycine max), 3'ss of exon 9
gtttgttcttttaatctgaatttcagatgt-tctcctattgataatgcctctgttactggataacttggatcaatgtacaatgttccagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTAAATGCCCCAATCCCCCCTGGTGCCAGTTTTGGTTATAGACCAGGGGAGTGGG
    ||  | | | | |   | |   |||| | |  ||||  |   | ||  |    |  |||||    |||||| |    |   |||| | |||||||| |||||||||||||| || ||||||||||||||  | ||||| || || |||||||| || |||||||||||    || || |  ||||
----gtaatatcagtgtctttgtggcatgtatgttgtattcttctggtcttggccctttcataac----atcaattttt--ttcaccagAGATATGGTCCTCCTCCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGAGCTAGTTTTGGTTACCATCCCGGTGGCTGGG

upper sequence: GRMZM2G132060_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 9
gtttgttcttttaatctgaatttcagatgttctcctattgataatgcctctgttactggataacttggatcaatg--tacaatgttccagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTAAATGCCCCAATCCCCCCTGGTGCCAGTTTTGGTTATAGACCAGGGGAGTGGG
         |   ||   |   ||   ||||    | || ||| |   |||||| ||||     ||    || |   ||   | || ||| | |||||||| || ||||| ||||| || ||||||||||| || || ||||| |||||||||||||| || || |||||||||   || || |  ||||
--------gtaatattatagcctcttctgttgcatttttcatattat-tctgttcctggcctttttaccccattaaatatgttttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG

upper sequence: GRMZM2G132060_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA07G31350.1 (Glycine max), 3'ss of exon 5
gtttgttcttttaatctgaatttcagatgt-tctcctattgataatgcctctgttactggataacttggatcaatgtacaatgttccagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTAAATGCCCCAATCCCCCCTGGTGCCAGTTTTGGTTATAGACCAGGGGAGTGGG
    ||  | | | | |   | |   |||| | |  ||||  |   | |   |    |  ||||| |  ||   | | ||            |||||||| ||| |||||||||| || ||||||||||||||  | ||||| || || |||||||| || |||||||||||    || || |  |   
----gtaatatcagtgtctttgtggcatgtatgttgtattcttctggtcctggccctttcataacatcaattttttt-caccagagGTATTGTATGGTCCTCCTTCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGGGCAAGTTTTGGTTACCATCCTGGTGGCT---

upper sequence: GRMZM2G132060_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA13G31550.2 (Glycine max), 3'ss of exon 9
gtttgttcttttaatctgaatttcagatgttctcctattgataatgcctctgttactggataacttggatcaatgtacaatgttccagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTAAATGCCCCAATCCCCCCTGGTGCCAGTTTTGGTTATAGACCAGGGGAGTGGG
         |   ||   |   ||   ||||    | || ||| |   |   |  |    | ||     | ||| |  | | || ||| | |||||||| || ||||| ||||| || ||||| ||||| || || ||||| || ||||||||||| || || |||||||||   || || |  ||||
--------gtaatattatagcgtcttctgttgcatttttcatattctgttactggccttttgaccccattaaatatg-attttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAAATCCCTGGACTGAATGCTCCTATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG

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|51592523|gb|CV071669.1|CV071669
EST:     CTCTTGGTATGCCTGATGGCGCCCCTCCCCCATGGCTTATAAACATGCAG                         CGCTAGGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTAAAT
genomic: CTCTTGGTATGCCTGATGGCGCCCCTCCCCCATGGCTTATAAACATGCAGgtttgttctt ... aatgttccagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTAAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctattgataatgcctctgttactggataacttggatcaatgtacaatgttccagCGCTATGGTCCACCTCCATCTTATCCCCAACTGAAGATCCCAGGTCTAAATGCCCCAATCCCCCCTGGTGCCAGTTTTGGTTATAGACCAGGGGAGTGGG
                        ggataac  putative branch site (score: 3)
     tgataat  TA-rich tract