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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attatacaatactacaagtttagggaccacctgtgttttttactcttctttttttctaatttttctcttcagcttttatgactttcaatgtacactttagGTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATATTGTAACCCAGCTTGCAAGCATGGGCTTCAACTACCTTCATTGTCAGAA

Basic information

species Zea mays
transcript GRMZM2G107696_T02
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107696_T02 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os01g08200.1 (Oryza sativa), 3'ss of exon 15
attatacaatactacaagtttagggaccacctgtgttttttactcttctttttttctaatttttctcttcagcttttatgactttcaatgtacactt-tagGTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATATTGTAACCCAGCTTGCAAGCATGGGCTTCAACTACCTTCATTGTCAGAA
                 |||    |||    ||| | ||  | | |    ||  ||  ||||| |   |   ||||  |||||  |||  ||  |||  || |||||||||  |||  || || |||| | ||||||||||||||||||| |||||| | ||||| ||||||||||| ||||| || |||||||| |||||
-----------------gtt---agactgt-tgtttattagattttcaacttgatcagattttcccgattgactttgctgactg-caacatattcttgcagCTTCTGGTGATAACAAAGCTGAACCTGTTCATCCTGTTGCCAGTGAGGACATTGTATCTCAGCTGGCAAGCATGGGGTTCAATTATCTTCATTGCCAGAA
















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|116817395|gb|EC860237.1|EC860237
EST:     TATGCGCAGC-AAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAG                         GTTCTGGATGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGAT
genomic: TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAGgtcagactgc ... tacactttagGTTCTGG-TGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGAT
EST: gi|211494928|gb|FL217185.1|FL217185
EST:     TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAG                         GTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAA-ATT
genomic: TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAGgtcagactgc ... tacactttagGTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGAT-
EST: gi|116819768|gb|EC862916.1|EC862916
EST:     TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAG                         GTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATA
genomic: TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAGgtcagactgc ... tacactttagGTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATA
EST: gi|31361116|gb|CD445473.1|CD445473
EST:     TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAG                         GTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATA
genomic: TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAGgtcagactgc ... tacactttagGTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATA
EST: gi|149014867|gb|EE044578.2|EE044578
EST:     TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAG                         GTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATA
genomic: TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAGgtcagactgc ... tacactttagGTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATA
EST: gi|71595705|gb|DR906456.1|DR906456
EST:     TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACTTGAAGGAG                         GTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATA
genomic: TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAGgtcagactgc ... tacactttagGTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATA
EST: gi|44682206|gb|CK787254.1|CK787254
EST:     TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAG                         GTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATA
genomic: TATGCGCAGCAAAGGATTACAGCCTGGGGAAGAGCTGCTACCTGAAGGAGgtcagactgc ... tacactttagGTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttttttctaatttttctcttcagcttttatgactttcaatgtacactttagGTTCTGGTGACGACAGTGCCGAGCCTGCTAATCCTGTTGCCAGTGAGGATATTGTAACCCAGCTTGCAAGCATGGGCTTCAACTACCTTCATTGTCAGAA
        ttctaat  putative branch site (score: 2)
     tttttctaatttttct  TA-rich tract