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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaaaattgtgaaataagtcccacaatttatgatgtttgagtatatgaatatttggttacatatgactttttgtttgcttgtgctgtatgtctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATACCGTTTCTGTTACCTGGCTGCTGTCCGGTATTTGCAAGTTGACCTGTTGT

Basic information

species Zea mays
transcript GRMZM2G175676_T01
intron # 3
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|211006355|gb|FL298861.1|FL298861
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... tctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
EST: gi|26558237|gb|CA830472.1|CA830472
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... tctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
EST: gi|148958451|gb|EC904686.2|EC904686
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... tctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
EST: gi|87155765|gb|DY400554.1|DY400554
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... tctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
EST: gi|21987840|gb|BQ779368.1|BQ779368
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... tctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
EST: gi|76933581|gb|DV173510.1|DV173510
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... tctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
EST: gi|76933582|gb|DV173511.1|DV173511
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... tctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
EST: gi|148958452|gb|EC904687.2|EC904687
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... tctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatatttggttacatatgactttttgtttgcttgtgctgtatgtctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATACCGTTTCTGTTACCTGGCTGCTGTCCGGTATTTGCAAGTTGACCTGTTGT
                      tttttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agaaaattgtgaaataagtcccacaatttatgatgtttgagtatatgaatatttggttacatatgactttttgtttgcttgtgctgtatgtctgtcgcagCACAAGCATTCGTGATCCGCCCAATTGGCTCTCAGGGTGATCAAGTTATACCGTTTCTGTTACCTGGCTGCTGTCCGGTATTTGCAAGTTGACCTGTTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - gaaataag
- - - - - - - - - -cccacaa
- - - - - - - - - - - - - - - tgatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgctgt