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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttttaaaccattcagggcatccaattttctttaaacaatttttatacttcgtatatcacatttatgtggtcgtcttgaaaatgtttggacacagtaatcttaattacaaaacttctgaattttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGACGAGGATCCAAGCCCAATCATTGAGCAGAGCTGTTAACGATTACGCATA

Basic information

species Zea mays
transcript GRMZM2G026869_T01
intron # 5
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|6194738|gb|AW146842.1|AW146842
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTAC
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTAC
EST: gi|60355726|gb|DN222699.1|DN222699
EST:     TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|78118115|gb|DV536502.1|DV536502
EST:     TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|71764970|gb|DR962907.1|DR962907
EST:     TGCCAATCAAGTCTTGGATTATTTGGTGCANNNNNNNAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|78023024|gb|DV491411.1|DV491411
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCC-ACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|6095632|gb|AW120299.1|AW120299
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCC-ACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|71444034|gb|DR825084.1|DR825084
EST:     TGCCAATCAAGTCTTGGATTATCTGGTGCANNNNNNNAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|5739771|gb|AI947347.1|AI947347
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCCC-CCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|5847510|gb|AW000589.1|AW000589
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCC-ACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|211117946|gb|FL431807.1|FL431807
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCC-ACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA
EST: gi|5819346|gb|AI987552.1|AI987552
EST:     TGTCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAG                         GCTATTTTTTCCTGGAGTTTACCGCTGATCCC-ACCAGATTGCTGGGAAGA
genomic: TGCCAATCAAGTCTTGGATTATCTGGTGCATTTTTCTAACAGAAAACGAGgtgagttttt ... ttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaatgtttggacacagtaatcttaattacaaaacttctgaattttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGACGAGGATCCAAGCCCAATCATTGAGCAGAGCTGTTAACGATTACGCATA
                     tcttaat  putative branch site (score: 3)
                  taatcttaattacaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtttttaaaccattcagggcatccaattttctttaaacaatttttatacttcgtatatcacatttatgtggtcgtcttgaaaatgtttggacacagtaatcttaattacaaaacttctgaattttgtatgaagGCTATTTTTTCCTGGAGTTTACCGCTGATCCCTACCAGATTGCTGGGAAGACGAGGATCCAAGCCCAATCATTGAGCAGAGCTGTTAACGATTACGCATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT