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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattgtttgaattgtattaacgttttctggtgtgcaattacatgctgaagccacattatgctaactcatagtttgtgtaactttccttcttcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG

Basic information

species Zea mays
transcript GRMZM2G107309_T06
intron # 12
splice site 3'
intron type U2

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|71449896|gb|DR830946.1|DR830946
EST:     ATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGAC                         GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
genomic: ATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGACgtaagattcc ... tcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
EST: gi|60397976|gb|DN230792.1|DN230792
EST:     TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGAC                         GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
genomic: TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGACgtaagattcc ... tcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
EST: gi|71763326|gb|DR961263.1|DR961263
EST:     TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGAC                         GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
genomic: TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGACgtaagattcc ... tcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
EST: gi|32930071|gb|CF034883.1|CF034883
EST:     TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGAC                         GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
genomic: TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGACgtaagattcc ... tcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
EST: gi|211416078|gb|FK952656.1|FK952656
EST:     TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGG-TTGTTGTGAC                         GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
genomic: TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGACgtaagattcc ... tcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
EST: gi|32932636|gb|CF037448.1|CF037448
EST:     TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGAC                         GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
genomic: TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGACgtaagattcc ... tcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
EST: gi|211416079|gb|FK952657.1|FK952657
EST:     TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGAC                         GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
genomic: TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGACgtaagattcc ... tcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
EST: gi|32866012|gb|CF005694.1|CF005694
EST:     TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGAC                         GGCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
genomic: TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGACgtaagattcc ... tcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
EST: gi|9732030|gb|BE510782.1|BE510782
EST:     TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGAC                         GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
genomic: TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGACgtaagattcc ... tcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
EST: gi|32834913|gb|CD974591.1|CD974591
EST:     TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGAC                         GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA
genomic: TATCTGCAGGATTCGATGCAGCTAGAGGTGACCCTCTGGGTTGTTGTGACgtaagattcc ... tcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagccacattatgctaactcatagtttgtgtaactttccttcttcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG
                                taactttccttcttc  CT-rich tract
                                            ttcaatatta  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattgtttgaattgtattaacgttttctggtgtgcaattacatgctgaagccacattatgctaactcatagtttgtgtaactttccttcttcaatattagGTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA