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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taatcaactaaaaggtgtgatgatgcggccatatgccaatcaattccatccatgttaaacattctctcattaattattttgttttttttttcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTTGTCATTTCAAAGGAG

Basic information

species Zea mays
transcript GRMZM5G866954_T03
intron # 1
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|149087044|gb|EE176585.2|EE176585
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCACTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|149096527|gb|EE182274.2|EE182274
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         ---C---TTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|148940025|gb|EC884765.2|EC884765
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|76015170|gb|DT942340.1|DT942340
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|149077240|gb|EE165910.2|EE165910
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|38687769|gb|CK144800.1|CK144800
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|91052940|gb|EB163358.1|EB163358
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|148966465|gb|EE017475.2|EE017475
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|149055191|gb|EE156112.2|EE156112
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|148991448|gb|EE032953.2|EE032953
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|148935202|gb|EC879238.2|EC879238
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|148944361|gb|EC889462.2|EC889462
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|148966380|gb|EE017375.2|EE017375
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|76018831|gb|DT946001.1|DT946001
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
EST: gi|71304052|gb|DR788147.1|DR788147
EST:     GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAAT                         GGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT
genomic: GGGCCGCGTGTCCCCGGTGGTGGGGCGAGGCGGCGCCGGCTTCCAGGAATgtgagttccc ... tcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatccatgttaaacattctctcattaattattttgttttttttttcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTTGTCATTTCAAAGGAG
                      cattaat  putative branch site (score: 3)
                ttctctcattaattat  CT-rich tract
         ttaaacattctctcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taatcaactaaaaggtgtgatgatgcggccatatgccaatcaattccatccatgttaaacattctctcattaattattttgttttttttttcttttgcagGGGCAGCTTGTAGTGGCTGTTTCTTTTGCATATGCGCTTTCTATTGTTGTTGTCATTTCAAAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG