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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAATGCGAAACCAAAAGAAGCCCGGTGTCATAATAAACATTGGTTCAGCGGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAGgtatatgatcccatatactgttttcttcttccctccttttgtcagcagattgttattgcaacattgaagggcatgtctggtgcaatggtgagagctgtct...

Basic information

species Zea mays
transcript GRMZM2G147191_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147191_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os09g28570.3 (Oryza sativa), 5'ss of exon 4
ATAATGCGAAACCAAAAGAAGCCCGGTGTCATAATAAACATTGGTTCAGCGGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAGgtatatgatcccatatactgttttcttcttccctccttttgtcagcagattgttattgcaacattgaagggcatgtctgg--tgcaatggtgagagctgtct----
|| ||||||      |||||||| |||||||||||||| ||||||||||| ||||| ||||||||||||  | | |||||| |||||||||   ||||||||  || || | ||    | | |  |||||   |  ||| | ||| |||||| | ||||||   |||| | |     |||  |  |||      |  | | |    
ATTATGCGATCTGGGAAGAAGCCTGGTGTCATAATAAATATTGGTTCAGCCGCAGGCCTTTATCCTATGAACTTTGATCCCATATATAGTGGAACAAAAGgtgcat-atacaatcacatatataattcttattt--tttgggcagaagattgctgttgcaa---tgaaagtccaacttggattataatttgatcatttatttgtga
















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|148940745|gb|EC885565.2|EC885565
EST:     GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAG                         GGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATTNGAA-CGCCATGGT
genomic: GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAGgtatatgatc ... ttcttgacagGGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATT-GAAACGCCATGGT
EST: gi|211092469|gb|FL162379.1|FL162379
EST:     GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAG                         GAGGTGGTGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCCCATGG
genomic: GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAGgtatatgatc ... ttcttgacagGGGGTG-TGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCC-ATGG
EST: gi|91868066|gb|EB399902.1|EB399902
EST:     GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAG                         GGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCCATGGTG
genomic: GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAGgtatatgatc ... ttcttgacagGGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCCATGGTG
EST: gi|148957626|gb|EC903733.2|EC903733
EST:     GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAG                         GGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCCATGGTG
genomic: GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAGgtatatgatc ... ttcttgacagGGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCCATGGTG
EST: gi|148941301|gb|EC886203.2|EC886203
EST:     GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAG                         GGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCCATGGTG
genomic: GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAGgtatatgatc ... ttcttgacagGGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCCATGGTG
EST: gi|71301436|gb|DR786749.1|DR786749
EST:     GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAG                         GGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCCATGGTG
genomic: GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAGgtatatgatc ... ttcttgacagGGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCCATGGTG
EST: gi|101384704|gb|EB814398.1|EB814398
EST:     GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAG                         GGGGTGTGGTTATGTTTANCA-GATCACTTTTCTC-ATTGAAA
genomic: GGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAGgtatatgatc ... ttcttgacagGGGGTGTGGTTATGTTTA-CAAGATCACTTT-CTCCATTGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAATGCGAAACCAAAAGAAGCCCGGTGTCATAATAAACATTGGTTCAGCGGCAGGTCTTTATCCTATGTTCCTCGATCCCGTATATAGTGCGGCAAAAGgtatatgatcccatatactgttttcttcttccctccttttgtcagcagattgttattgcaacattgaagggcatgtctggtgcaatggtgagagctgtct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccctcct