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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgctgttgtttgaagcttctagttaaatacttagactattgcacaatcatttcatttgtcgctctctaacgtttccatttcctttttgcgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAGTCCTTAGGCATGGCTCAGCAGATAGTGTCCGTGCTGTCATAAGAGCTAA

Basic information

species Zea mays
transcript GRMZM2G460078_T03
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|78111750|gb|DV530147.1|DV530147
EST:     CGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAG                         CATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
genomic: CGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
EST: gi|91049611|gb|EB160029.1|EB160029
EST:     TCTCGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAG                         CATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
genomic: TCTCGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
EST: gi|211025828|gb|FK982703.1|FK982703
EST:     ACTTCACCTCTTCTGCTTCCTTCTCCCCAG                         CATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
genomic: ACTTCACCTCTTCTGCTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
EST: gi|211025826|gb|FK982701.1|FK982701
EST:     TCTCGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAG                         CATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
genomic: TCTCGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
EST: gi|211025831|gb|FK982706.1|FK982706
EST:     ACTTCACCTCTTCTGCTTCCTTCTCCCCAG                         CATACAGGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAA
genomic: ACTTCACCTCTTCTGCTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACA-GTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAA
EST: gi|71434528|gb|DR815578.1|DR815578
EST:     CTTCCTTCTCCCCAG                         CATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
genomic: CTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
EST: gi|71332183|gb|DR803010.1|DR803010
EST:     TCTCGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAG                         CATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
genomic: TCTCGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
EST: gi|211025829|gb|FK982704.1|FK982704
EST:     TCTCGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAG                         CATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
genomic: TCTCGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
EST: gi|93012882|gb|EB638402.1|EB638402
EST:     GCTTCCTTCTCCCCAG                         CATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
genomic: GCTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
EST: gi|148961982|gb|EE012780.2|EE012780
EST:     TCTCGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAG                         CATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
genomic: TCTCGCTCGCCTCCGACGCCACTTCACCTCTTCTGCTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
EST: gi|211025830|gb|FK982705.1|FK982705
EST:     ACTTCACCTCTTCTGCTTCCTTCTCCCCAG                         CATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG
genomic: ACTTCACCTCTTCTGCTTCCTTCTCCCCAGgtcggctatt ... cgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatcatttcatttgtcgctctctaacgtttccatttcctttttgcgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAGTCCTTAGGCATGGCTCAGCAGATAGTGTCCGTGCTGTCATAAGAGCTAA
                    ctctaac  putative branch site (score: 2)
                          cgtttccatttccttt  CT-rich tract
     atttcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catgctgttgtttgaagcttctagttaaatacttagactattgcacaatcatttcatttgtcgctctctaacgtttccatttcctttttgcgttctttagCATACAGTGCCAGACAGGATACCCACACATTCATGGAGGTGGTTCAAGAAGTCCTTAGGCATGGCTCAGCAGATAGTGTCCGTGCTGTCATAAGAGCTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT