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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatccaatatttctttcccttcgcctctcttcagactccaactagaccttcaattcatggattccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGTGTAAAAGCATGTCTGTAGCAAGGATATATCTGTTCTGCAAGACCTCCTG

Basic information

species Zea mays
transcript GRMZM2G147500_T04
intron # 13
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|37397418|gb|CF636006.1|CF636006
EST:     GGCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAG                         TGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
genomic: GGCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
EST: gi|60342233|gb|DN209206.1|DN209206
EST:     GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAG                         TGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
genomic: GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
EST: gi|32943705|gb|CF048524.1|CF048524
EST:     GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAG                         TGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
genomic: GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
EST: gi|71427991|gb|DR809041.1|DR809041
EST:     GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAG                         TGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
genomic: GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
EST: gi|211407819|gb|FL480459.1|FL480459
EST:     GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAG                         TGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
genomic: GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
EST: gi|211359663|gb|FL110322.1|FL110322
EST:     GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAG                         TGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCCGAG-
genomic: GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCC-GAGG
EST: gi|60350197|gb|DN217170.1|DN217170
EST:     GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAG                         -G--AGG---CATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
genomic: GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
EST: gi|149096859|gb|EE182653.2|EE182653
EST:     GCCTGCATCATGTCCAAGCACTTCAAGTTTGATAAGCCAAG                         TGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
genomic: GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
EST: gi|76923166|gb|DV169365.1|DV169365
EST:     GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAG                         TGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
genomic: GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
EST: gi|31405728|gb|CD484460.1|CD484460
EST:     GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAG                         TGGCAGGAGACATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
genomic: GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
EST: gi|32911044|gb|CF015856.1|CF015856
EST:     GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAG                         TGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT
genomic: GCCTGCATCATGTCCAAGCACTTCAAGTCTGATAAGCCAAGgtgatccaat ... tccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttcgcctctcttcagactccaactagaccttcaattcatggattccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGTGTAAAAGCATGTCTGTAGCAAGGATATATCTGTTCTGCAAGACCTCCTG
                                            ttccgtc  CT-rich tract
                               ttcaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatccaatatttctttcccttcgcctctcttcagactccaactagaccttcaattcatggattccgtcacagTGGCAGGAGGCATAGCGGTCTGGATGGCGAGCGTGAGGCATCTGCCGAGGTGTAAAAGCATGTCTGTAGCAAGGATATATCTGTTCTGCAAGACCTCCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA