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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcaccttctcccttttcgactgtaccggctgcattaattttttttcttgacacagtctgtaacagtattgttcacatgtcctactatggttgtttcttccctgcttatgcattactatatcttgttttacttgctataacatttgctctgtaaatctgcagCCTTCTGTAGCCACCACCGACACAAGCTGCGAGTCTGTGGTGACAAGTGGTCAGCACAAGCAGCAGCAAAACCCAGCAGTTCTGCATCCTCCACAAAGGG

Basic information

species Zea mays
transcript GRMZM2G003509_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G003509_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g41860.1 (Oryza sativa), 3'ss of exon 2
gtgagcaccttctcccttttcgactgtaccggctgcattaattttttttcttgacacagtctgtaacagtattgttcacatgtcctactatggttgtttcttccctgcttatgcattactat-atcttgttttacttgcta-taacatttgctctgtaaatctgcagCCTTCTGTAGCCACCACCGACACAAGCTGCGAGTCTGTGGTGACAAGTGGTCAGCACAAGCAGCAGCAAAACCCAGCAGTTCTGCATCCTCCACAAAGGG
                                                                    ||    | |   ||           |||||  | |  |   |    |||   || ||| ||||||  |    | |||  |||| | ||||  | || ||||||||| ||||||||| || |||||||| ||||||||||||||||||||||||||| | || |||||||||||||||||||||||||| | |      |
--------------------------------------------------------------------gtgagctccctgtgcttacaggcttttgttcttacaattgcttcatattttgatcatcctgttttcttaatcagtaatgtttg-tatgtac-tttgtagCCTTCTGCAGCCACCACAGATACAAGCTGTGAGTCTGTGGTGACAAGTGGTCAGCACCATCAACAGCAAAACCCAGCAGTTCTGCATCCGCAAAGGGATG

upper sequence: GRMZM2G003509_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv10s0003g04670.t01 (Vitis vinifera), 3'ss of exon 2
gtgagcaccttctcccttttcgactgtaccggctgcattaattttttttcttgacacagtctgtaacagtattgttcacatgtcctactatggttgtttcttccctgcttatgcattactatatcttgttttacttgctataacatttgctctgtaaatctgcagCCTTCTGTAGCCACCACCGACACAAGCTGCGAGTCTGTGGTGACAAGTGGTCAGCACAAGCAGCAGCAAAACCCAGCAGTTCTGCATCCTCCACAAAGGG
                                                             | | ||  | || |  ||  |   ||  | | ||   | | |  || | |   |||| ||   ||| | ||  |    ||  ||||||||   | |     ||| | |||  ||| ||||| ||||| ||||||||||||||||| |  || ||||||||| | || |||||||||||| ||  || |||||||| |      |
-------------------------------------------------------------tttcaccttctt-taaaccagcattaggaagttttgctatccattgttca---attaatagtacttatgttcttataaatctcatttgctggattatataccagGCATCTACAGCGACCACAGACACTAGCTGCGAGTCTGTGGTCATGAGCGGTCAGCACCAACAACAGCAAAACCCAACACCTCAGCATCCTCAAAGGGATG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcattactatatcttgttttacttgctataacatttgctctgtaaatctgcagCCTTCTGTAGCCACCACCGACACAAGCTGCGAGTCTGTGGTGACAAGTGGTCAGCACAAGCAGCAGCAAAACCCAGCAGTTCTGCATCCTCCACAAAGGG
                           ctataac  putative branch site (score: 3)
         tatatcttgtttta  TA-rich tract