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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAGCCTACTTCGTGGAACCAAGCCACGACTGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctctatcaggcatcctcgatcggatggctggagccaggcagatgctagccatctgccattcatcaggatacatatatatattatgttctctgtcaaattccgaatctttacagctgcgttgtatatatctccactgcccag

Basic information

species Zea mays
transcript GRMZM2G147882_T03
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147882_T03 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os01g09300.2 (Oryza sativa), 5'ss of exon 10
ATAGCCTACTTCGTGGAACCAAGCCACGACTGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctctatcaggcatcctcgatcggatggctggagccaggcagatgctagccatctgccattcatcaggatacatatatatattatgttctctgtcaaattccgaatctttacagctgcgttgtatatatctccactgcccag
|| || | ||| ||||||||||||||||| ||||| || ||||||||||| |||||||| || ||||||||||||||||||||||  |       | |    ||||  |    |    ||| |   ||        |    | |||| | ||    | | | ||| | |||  ||  |       | |                                      
ATTGCGTTCTTTGTGGAACCAAGCCACGATTGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacacattccctttgatgatc--acaattcagcccatgtccataaccattgttcatc-ttcaccggggcg-agaaacataatgtgtgttccattgtccaaccag-------------------------------------
















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|78077655|gb|DV506089.1|DV506089
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
EST: gi|211415426|gb|FL477512.1|FL477512
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
EST: gi|32924444|gb|CF029256.1|CF029256
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTA
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTA
EST: gi|211525267|gb|FL432922.1|FL432922
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
EST: gi|32923806|gb|CF028618.1|CF028618
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGT
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGT
EST: gi|71299018|gb|DR785501.1|DR785501
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGTTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
EST: gi|32923874|gb|CF028686.1|CF028686
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTACCTG
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTG
EST: gi|32924334|gb|CF029146.1|CF029146
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGT
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGT
EST: gi|78021585|gb|DV489972.1|DV489972
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
EST: gi|32923638|gb|CF028450.1|CF028450
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGT
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGT
EST: gi|76287314|gb|DV026882.1|DV026882
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
EST: gi|71429425|gb|DR810475.1|DR810475
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
EST: gi|32858735|gb|CD998416.1|CD998416
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
EST: gi|32923912|gb|CF028724.1|CF028724
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGT
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGT
EST: gi|32923869|gb|CF028681.1|CF028681
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGT
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGT
EST: gi|32923708|gb|CF028520.1|CF028520
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGT
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGT
EST: gi|32924079|gb|CF028891.1|CF028891
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTACCTG
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTG
EST: gi|74241069|gb|DT648983.1|DT648983
EST:     TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC
genomic: TGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctcta ... cactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAGCCTACTTCGTGGAACCAAGCCACGACTGCGTGGTGGAGTGCCTGCCGACCTGCAAGTCCGAATCAAATCCTCCAAAgtaagctctatcaggcatcctcgatcggatggctggagccaggcagatgctagccatctgccattcatcaggatacatatatatattatgttctctgtcaaattccgaatctttacagctgcgttgtatatatctccactgcccag

- - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - GTGGAG