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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atacagtatactgggtttttaagtggaattattccccttctagtttttctgtggaagtttttcttatgttcttttttgtatatgtggtttccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGAGCCCTGCGGTAGACATCTAGCCACTGGTGGGCAG

Basic information

species Zea mays
transcript GRMZM2G133749_T01
intron # 9
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|71758651|gb|DR956588.1|DR956588
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTATTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|78110506|gb|DV528916.1|DV528916
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|78110507|gb|DV528917.1|DV528917
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|78120249|gb|DV538633.1|DV538633
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|60355334|gb|DN222307.1|DN222307
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|76287081|gb|DV026649.1|DV026649
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|5932732|gb|AW057093.1|AW057093
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|31664125|gb|CD573305.1|CD573305
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|213186763|gb|FM190552.1|FM190552
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|60349571|gb|DN216544.1|DN216544
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|93283432|gb|EB675696.1|EB675696
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctgtggaagtttttcttatgttcttttttgtatatgtggtttccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGAGCCCTGCGGTAGACATCTAGCCACTGGTGGGCAG
                                          tttccat  CT-rich tract
                       ttcttttttgtatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atacagtatactgggtttttaagtggaattattccccttctagtttttctgtggaagtttttcttatgttcttttttgtatatgtggtttccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGAGCCCTGCGGTAGACATCTAGCCACTGGTGGGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG