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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaacttcctttgtgtattcttaatcctttgatagattatgatacatggtaattatgagtttagttattttgttgatagagcacactaattttct...

Basic information

species Zea mays
transcript GRMZM2G109039_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109039_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g48964.1 (Oryza sativa), 5'ss of exon 4
GATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaacttcctttgtgtattcttaatcctttgatagattatgatacatggtaattatgagtttagttattttgttgatagagcac--actaattttct---
|| |||||||| || || ||||| ||||| || ||||| ||||| |||||||||||||| || ||||||||||| ||||||||||||||| | | ||||   ||   | || |   |||  |   |||| ||  | ||     ||||| ||   | | |||   | ||||  ||||    |  |  | |   
GAATGCAAACCGACTGAAAAAGGCGGGATGTATTATGAATTTAGGCGAAATACTAGATCAGTAAAATCAACTATACTACATTTTCAGgtgggctcactt---ttacatcttttacttccccttcaagataatattccaccactattatcaga--aataattgattagatatcgcactagttggtagtattta

upper sequence: GRMZM2G109039_T03 (Zea mays), 5'ss of exon 4
lower sequence: PP1S32_210V6.3 (Physcomitrella patens), 5'ss of exon 5
GATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaacttcctttgtgtattcttaatcctttgatagattatgatacatggtaattatgagtttagttattttgttgatagagcacactaattttct--
|| ||||||     ||||||||| || |  |  | ||| ||| | |  || |||||||||||||||||||||||  | ||||||||||| |||     |    |   |||| |  ||  |||  |   ||   ||   | ||    | |  ||| |   |||||| |   ||    |  | ||      
GAGTGCAAAGTGGTAGAGAAAGGAGGAAAGTTTTTTGATTTTCGGCACAACACTAGATCGGTTAAATCAACTATCGTTCATTTTCAGgtcagtccctcttagattcatattgtctatgtttttttt--ttcccatgagttgtgtgcagggcttttggctttttgtggcgtgacattatcagttggagtt
















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|58029875|gb|CX725302.1|CX725302
EST:     AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG                         CTTAGAAATTTGGTATGGGCAACGGCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
EST: gi|5510853|gb|AI857237.1|AI857237
EST:     AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG                         CTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
EST: gi|20301188|gb|BQ164131.1|BQ164131
EST:     AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG                         CTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
EST: gi|20301181|gb|BQ164124.1|BQ164124
EST:     AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG                         CTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
EST: gi|20300911|gb|BQ163854.1|BQ163854
EST:     AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG                         CTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
EST: gi|20301275|gb|BQ164218.1|BQ164218
EST:     AGTTTAGACGAAATACTAGATCGG-TAAATCAACTATTCTACATTTTCAG                         CTTAGAAA-TTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
EST: gi|20300918|gb|BQ163861.1|BQ163861
EST:     AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG                         CTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
EST: gi|26456084|gb|CA827667.1|CA827667
EST:     AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG                         CTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT