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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattatcatgtcaaagtttttttttgtaacatatatgaaataaaattggcttcacagattatagttcatctactaaatttttttgttctacactctgcagAAAACTTTAGGGCTCTTTGTACAG

Basic information

species Zea mays
transcript GRMZM2G158237_T03
intron # 3
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|211434807|gb|FL427281.1|FL427281
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211431653|gb|FL404571.1|FL404571
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211093050|gb|FL420421.1|FL420421
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCNGTTCCAAAAACAGTTK                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTC-GTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211109670|gb|FL337450.1|FL337450
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|30704819|gb|CD058611.1|CD058611
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211300966|gb|FL391501.1|FL391501
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211229694|gb|FL389659.1|FL389659
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211256545|gb|FL390498.1|FL390498
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTATAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|67015837|gb|CO444586.1|CO444586
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211521053|gb|FL387965.1|FL387965
EST:     GTAGAATTGTTATTGGTCTCYATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTT-AGGGCTCTTTGTACAG
EST: gi|211182577|gb|FL404772.1|FL404772
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211534860|gb|FL340389.1|FL340389
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211057736|gb|FL416996.1|FL416996
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|88755062|gb|DY539203.1|DY539203
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211402954|gb|FL382690.1|FL382690
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211194087|gb|FL377670.1|FL377670
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211373857|gb|FL385822.1|FL385822
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211211751|gb|FL376364.1|FL376364
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|78080821|gb|DV509233.1|DV509233
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211061094|gb|FL320234.1|FL320234
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211341298|gb|FL394244.1|FL394244
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|26558040|gb|CA830275.1|CA830275
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|76922696|gb|DV169126.1|DV169126
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|91877249|gb|EB407206.1|EB407206
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|31355561|gb|CD439918.1|CD439918
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211076170|gb|FL369895.1|FL369895
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|21843567|gb|BQ704148.1|BQ704148
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG
EST: gi|211163731|gb|FL337956.1|FL337956
EST:     GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTG                         AAAACTTTAGGGCTCTTTGTACAG
genomic: GTAGAATTGTTATTGGTCTCTATGGGGAGGTCGTTCCAAAAACAGTTGgtattcttat ... cactctgcagAAAACTTTAGGGCTCTTTGTACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggcttcacagattatagttcatctactaaatttttttgttctacactctgcagAAAACTTTAGGGCTCTTTGTACAG
                         tactaaa  putative branch site (score: 1)
                                tttttttgttctac  CT-rich tract
            attatagttcatctac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattatcatgtcaaagtttttttttgtaacatatatgaaataaaattggcttcacagattatagttcatctactaaatttttttgttctacactctgcagAAAACTTTAGGGCTCTTTGTACAG

- - - catgtca
- - - - - - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - gcttcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttcatc