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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcaaaaagatcctttatagtagtcacagagatccttctataggttaatctcttgctattgctaatcatggtcggcacatttttacagCTGGGTATGAAATTCAATGAAACAAGATTGAAGTCATCTATTCTTCATGTATTTCCTTTCAACTCAGAGAAAAAGCGAGGTGGGGTTGCAGTGCACCTG

Basic information

species Zea mays
transcript GRMZM2G140328_T04
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G140328_T02 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 3'ss of exon 19
gtgca-aaaagatcct-ttatagtagtca---cagagatccttctataggttaatctcttgctattgctaatcatggtcggcacatttttacagCTGGGTATGAAATTCAATGAAACAAGATTGAAGTCATCTATTCTTCATGTATTTCCTTTCAACTCAGAGAAAAAGCGAGGTGGGGTTGCAGTGCACCTG
|| || | |  ||||| || ||||||      || |||| ||    |   |  ||  |||    ||| | | |||| ||  || ||||  |||||| || |||| ||||||||| ||||||   ||||| |||||||||||||| || || |||||||||||||||||  |||| |||||||||||||| |||
gtacacatacaatcctattttagtagctgaatcacagattctagattttttgtatgccttctgtttggtgaccatgctcttcatatttccacagCTTGGCATGAGATTCAATGACACAAGAACAAAGTCCTCTATTCTTCATGTTTTCCCATTCAACTCAGAGAAAAAAAGAGGCGGGGTTGCAGTGCATCTG

upper sequence: GRMZM2G140328_T02 (Zea mays), 3'ss of exon 19
lower sequence: GLYMA13G00420.1 (Glycine max), 3'ss of exon 19
gtgcaaaaagatcctttatagtagtcacagagatccttctataggttaatctcttgctattgctaatcatggtcggcacatttttacagCTGGGTATGAAATTCAATGAAACAAGATTGAAGTCATCTATTCTTCATGTATTTCCTTTCAACTCAGAGAAAAAGCGAGGTGGGGTTGCAGTGCACCTG
||       ||  ||| | | |  |||     ||  |        |||  |  || | | |  | || |   |    |     || ||||| || ||||| ||  |     | ||||   | ||||| ||| |||||||||| || ||||| ||||| ||||||||||| || ||||||   |   ||
gtctgttttgaaacttaaaatt--tcaacttcattttatggagctttatgcaattacaactatttatgactcttaagatcaaatttcagCTTGGGATGAATTTTGACACTGCCAGATCAGACTCATCAATTATTCATGTATTCCCATTCAATTCAGACAAAAAGCGAGGAGGAGTTGCAACACGGGTG

upper sequence: GRMZM2G140328_T02 (Zea mays), 3'ss of exon 19
lower sequence: GLYMA17G06520.1 (Glycine max), 3'ss of exon 21
gtgcaaaaagatcctttatagtagtcacag-----agatccttctataggttaatctcttgctattgctaatcatggtcggcacattt--ttacagCTGGGTATGAAATTCAATGAAACAAGATTGAAGTCATCTATTCTTCATGTATTTCCTTTCAACTCAGAGAAAAAGCGAGGTGGGGTTGCAGTGCACCTG
           || ||| |   | | | |      |  || || ||  |  |  | |     ||   ||| | |||   |  | ||    || ||||| || ||||| ||  |     | ||||  |||||||| ||| |||||||||| || ||||| ||||| ||||||||||| || ||||||       ||
----------gtcttttttgaaacttaaaatttcaacttcattttaaggagttttatgcaattacaactagttatgagtgttagatcaaatttcagCTTGGGATGAATTTTGACACTGCCAGATCAAAGTCATCAATTATTCATGTATTCCCATTCAATTCAGACAAAAAGCGAGGAGGAGTTGCAACATGGGTG

upper sequence: GRMZM2G140328_T02 (Zea mays), 3'ss of exon 19
lower sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 20
gtgcaaaaagatccttta-tagtagtcacagagatccttctataggttaatctcttgctatt--gctaatcatggtcggc-acattttta---cagCTGGGTATGAAATTCAATGAAACAAGATTGAAGTCATCTATTCTTCATGTATTTCCTTTCAACTCAGAGAAAAAGCGAGGTGGGGTTGCAGTGCACCTG
         | |||  || ||   |  ||| |    || || | ||      | |   | |   | | |   | |||  | | ||  |||   ||| |||| ||||| ||  ||| || ||||    | || || ||||| ||||| || ||||||||||||||||||||| ||||||| |||||||| ||    
---------gttcccctactacctgaaacatattatctccttttggcatgcatatctatgtcaagttgactttagtcatctatatccttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTTTTCCCTTTCAACTCAGAGAAAAAGAGAGGTGGTGTTGCAGTACAG---


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttctataggttaatctcttgctattgctaatcatggtcggcacatttttacagCTGGGTATGAAATTCAATGAAACAAGATTGAAGTCATCTATTCTTCATGTATTTCCTTTCAACTCAGAGAAAAAGCGAGGTGGGGTTGCAGTGCACCTG
                          tgctaat  putative branch site (score: 2)
                                            cattttt  putative PPT
                                           acattttta  TA-rich tract