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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtaaaatgcaaacacagaactagttatccagaatcagaactgatatatcctacgactgctagcacttgtttaccgagttttgactttcttgtggatccagGCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCTG

Basic information

species Zea mays
transcript GRMZM2G169914_T01
intron # 8
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|5650195|gb|AI920555.1|AI920555
EST:     CCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACG                         GCTAAGAGGGAGTTGCACGACCCAGAGACTGCAATTATTGGTGCTTTTGCT
genomic: CCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACGgtatttatct ... gtggatccagGCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCT
EST: gi|60339440|gb|DN206413.1|DN206413
EST:     CCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACG                         GCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCT
genomic: CCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACGgtatttatct ... gtggatccagGCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCT
EST: gi|76280497|gb|DV020065.1|DV020065
EST:     CCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACG                         GCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCT
genomic: CCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACGgtatttatct ... gtggatccagGCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCT
EST: gi|89761076|gb|DY689235.1|DY689235
EST:     CAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACG                         GCTAAGAGGGAGTTGCACGACACACAGACTGCAATTATTGGTGCTTTTGCT
genomic: CAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACGgtatttatct ... gtggatccagGCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCT
EST: gi|50325534|gb|CO520660.1|CO520660
EST:     CCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACG                         GCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCT
genomic: CCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACGgtatttatct ... gtggatccagGCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcctacgactgctagcacttgtttaccgagttttgactttcttgtggatccagGCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCTG
                                ttttgac  putative branch site (score: 3)
                                      ctttcttgt  CT-rich tract
                    ttgttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaatgcaaacacagaactagttatccagaatcagaactgatatatcctacgactgctagcacttgtttaccgagttttgactttcttgtggatccagGCTAAGAGGGAGTTGCACGACACAGAGACTGCAATTATTGGTGCTTTTGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG