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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTCAACCTCGTAAGGGAAAGTATCTAGCAGCTGCCTCAGAGAAAGCAATCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAGgttggttactaatgatcactgctaaagtctgccacttactatagttacatgcaacttactatagatacatgcaatttatgacgtgcataattaacttctt...

Basic information

species Zea mays
transcript GRMZM2G022383_T02
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G022383_T01 (Zea mays), 5'ss of exon 16
lower sequence: LOC_Os01g42260.3 (Oryza sativa), 5'ss of exon 16
ATTTCAACCTCGTAAGGGAAAGTATCTAGCAGCTGCCTCAGAGAAAGCAATCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAGgttggttactaatgatcactgctaaagtctgccacttactatagttacatgcaacttactat-agatacat-gcaatttatgacgtgcataattaacttctt
|||||||||||  |||||||| ||||| ||||||||||||||||| || ||||||||||||||||| |||||||||| ||||||||||| |||  |||||||  ||||  | | | |  | | | | | ||           | | || |    |||   || |  | ||| ||  ||||||  |  |        |  |  
ATTTCAACCTCAAAAGGGAAAATATCTTGCAGCTGCCTCAGAGAAGGCCATCTACATACTTGATGGAGAGACACAACTTGCTTGTAGAAACCCTCTGCAGgtctgttagcatttacccattc-agaatgtgtataaggaagcattcacttagcccttgtaattaactgcattgctgtttatgcggcaccatgcctccgcca-
















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|67020143|gb|CO448892.1|CO448892
EST:     TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAG                         GGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
genomic: TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAGgttggttact ... aaatgtgtagGGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
EST: gi|211426280|gb|FL284121.1|FL284121
EST:     TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAG                         GGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
genomic: TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAGgttggttact ... aaatgtgtagGGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
EST: gi|76281467|gb|DV021035.1|DV021035
EST:     TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAG                         GGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
genomic: TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAGgttggttact ... aaatgtgtagGGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
EST: gi|211426278|gb|FL284119.1|FL284119
EST:     TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAG                         GGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
genomic: TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAGgttggttact ... aaatgtgtagGGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
EST: gi|32943545|gb|CF048364.1|CF048364
EST:     TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAG                         GGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
genomic: TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAGgttggttact ... aaatgtgtagGGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
EST: gi|60355397|gb|DN222370.1|DN222370
EST:     TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAG                         GGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT
genomic: TCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAGgttggttact ... aaatgtgtagGGGCACAATAAGAATATTCAATCGCTTTGTTGGGACTCTGCTGGTGAATAT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTCAACCTCGTAAGGGAAAGTATCTAGCAGCTGCCTCAGAGAAAGCAATCTACATACTTGATGGGGAGACACAACATGCTTGTAGAAGCCCCTTGCAGgttggttactaatgatcactgctaaagtctgccacttactatagttacatgcaacttactatagatacatgcaatttatgacgtgcataattaacttctt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC