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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttagtttgtgaaatggtttaaaagaaattaacagttagaattatgtaggttgtctattcagttctcctactctgatatttatgaaccgtacacagGAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAATG

Basic information

species Zea mays
transcript GRMZM2G020002_T02
intron # 10
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|74240936|gb|DT648850.1|DT648850
EST:     GTC-TGAGGGAACGGATGCATATACTTTGGGACAGCATGGTG                         GAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA
genomic: GTCTTGA-GGAACGGATGCATATACTTTGGGACAGCATGGTGgtaagtttag ... ccgtacacagGAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA
EST: gi|211361841|gb|FL432810.1|FL432810
EST:     GAACGGATGCATATACTTTGGGACAGCATGGT-                         --GACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA
genomic: GAACGGATGCATATACTTTGGGACAGCATGGTGgtaagtttag ... ccgtacacagGAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA
EST: gi|28187829|gb|CB179439.1|CB179439
EST:     GTCTTGAGGAACGGATGCATATACTTTGGGACAGCATGGTG                         GAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA
genomic: GTCTTGAGGAACGGATGCATATACTTTGGGACAGCATGGTGgtaagtttag ... ccgtacacagGAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA
EST: gi|78079711|gb|DV508123.1|DV508123
EST:     GTCTTGAGGAACGGATGCATATACTTTGGGACAGCATGGTG                         GAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA
genomic: GTCTTGAGGAACGGATGCATATACTTTGGGACAGCATGGTGgtaagtttag ... ccgtacacagGAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA
EST: gi|113703820|gb|EE681324.1|EE681324
EST:     GTCTTGAGGAACGGATGCATATACTTTGGGACAGCATGGTG                         GAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA
genomic: GTCTTGAGGAACGGATGCATATACTTTGGGACAGCATGGTGgtaagtttag ... ccgtacacagGAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA
EST: gi|148929734|gb|EC876616.2|EC876616
EST:     GTCTTGAGGAACGGATGCATATACTTTGGGACAGCATGGTG                         GAGACTGGCAAGATTTCTGTATCCGACTATGTCAGAGTGACAAGCACAGAA
genomic: GTCTTGAGGAACGGATGCATATACTTTGGGACAGCATGGTGgtaagtttag ... ccgtacacagGAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatgtaggttgtctattcagttctcctactctgatatttatgaaccgtacacagGAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAATG
                             ctctgat  putative branch site (score: 4)
                                  atatttatgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttagtttgtgaaatggtttaaaagaaattaacagttagaattatgtaggttgtctattcagttctcctactctgatatttatgaaccgtacacagGAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA