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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattgcttcatcccaaataagcatttcctatgctgaaaattctttggttaataacacaaggcccttgtttttttcctggcagAGGAAGTGAACCATTTGCTGAGACTGTTGTGCAGTTAATTAGTCGCACTGGGGTTTTTCTGCACTTGCTCATCCTTGGTCACTGAAGAACCCAGATGCAA

Basic information

species Zea mays
transcript GRMZM2G065641_T01
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|211290426|gb|FL169143.1|FL169143
EST:     AGACAAGCATTCAACAAATACCTCGGCGATGATGGCCCTGCATATGCCAG                         AGGAAGTGAACCATTTGCTGAGACTGTTGTGCAGTTNATTAGTCGCACTGG
genomic: AGCCAAGCATTCAACAAATACCTCGGCAATGATGGCCCTGCATATGCCAGgttattgctt ... ttcctggcagAGGAAGTGAACCATTTGCTGAGACTGTTGTGCAGTTAATTAGTCGCACT-G
EST: gi|211290423|gb|FL169140.1|FL169140
EST:     AGACAAGCATTCAACAAATACCTCGGCGATGATGGCCCTGCATATGCCAG                         AGGAAGTGAACCATTTGCTGAGACTGTTGTGCAGTTAATTAGTCGCACTGG
genomic: AGCCAAGCATTCAACAAATACCTCGGCAATGATGGCCCTGCATATGCCAGgttattgctt ... ttcctggcagAGGAAGTGAACCATTTGCTGAGACTGTTGTGCAGTTAATTAGTCGCACT-G
EST: gi|211290422|gb|FL169139.1|FL169139
EST:     AGACAAGCATTCAACAAATACCTCGGCGATGATGGCCCTGCATATGCCAG                         AGGAAGTGAACCATTTGCTGAGACTGTTGTGCAGTTNATTAGTCGCACTGG
genomic: AGCCAAGCATTCAACAAATACCTCGGCAATGATGGCCCTGCATATGCCAGgttattgctt ... ttcctggcagAGGAAGTGAACCATTTGCTGAGACTGTTGTGCAGTTAATTAGTCGCACT-G


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgctgaaaattctttggttaataacacaaggcccttgtttttttcctggcagAGGAAGTGAACCATTTGCTGAGACTGTTGTGCAGTTAATTAGTCGCACTGGGGTTTTTCTGCACTTGCTCATCCTTGGTCACTGAAGAACCCAGATGCAA
                     taataac  putative branch site (score: 1)
                                  cccttgtttttttcct  putative PPT
        aaaattcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttattgcttcatcccaaataagcatttcctatgctgaaaattctttggttaataacacaaggcccttgtttttttcctggcagAGGAAGTGAACCATTTGCTGAGACTGTTGTGCAGTTAATTAGTCGCACTGGGGTTTTTCTGCACTTGCTCATCCTTGGTCACTGAAGAACCCAGATGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG