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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgacttttactcctctctaattgaaataatcatgtagttctccaatgaattatcttaatatcatctcttttgctactatgtagGTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAATTGTTGAAGCATGTCGTGGATGAGAGGACTTCGGACGAAGAAAAGGCCTT

Basic information

species Zea mays
transcript GRMZM2G120175_T01
intron # 2
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|74234882|gb|DT642796.1|DT642796
EST:     CATTTTGTTGCATGTGACGAAGGATTATGAAAGGATCCCACAATCAAGAA                         GTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAAT
genomic: CATTTTGTTGCATGTGACGAAGGATTATGAAAGGATCCCACAATCAAGAAgtgtgtgact ... tactatgtagGTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAAT
EST: gi|101381796|gb|EB812955.1|EB812955
EST:     CATTTTGTTGCATGTGACGAAGGATTATGAAAGGATCCCACAATCAAGAA                         GTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAAT
genomic: CATTTTGTTGCATGTGACGAAGGATTATGAAAGGATCCCACAATCAAGAAgtgtgtgact ... tactatgtagGTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAAT
EST: gi|148934735|gb|EC878784.2|EC878784
EST:     CATTTTGTTGCATGTGACGAAGGATTATGAAAGGATCCCACAATCAAGAA                         GTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAAT
genomic: CATTTTGTTGCATGTGACGAAGGATTATGAAAGGATCCCACAATCAAGAAgtgtgtgact ... tactatgtagGTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAAT
EST: gi|211152612|gb|FL453073.1|FL453073
EST:     CATTTTGTTGCATGTGACGAAGGATTATGAAAGGATCCCACAATCAAGAA                         GTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAAT
genomic: CATTTTGTTGCATGTGACGAAGGATTATGAAAGGATCCCACAATCAAGAAgtgtgtgact ... tactatgtagGTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAAT
EST: gi|148943740|gb|EC888810.2|EC888810
EST:     CATTTTGTTGCATGTGACGAAGGATTATGAAAGGATCCCACAATCAAGAA                         GTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAAT
genomic: CATTTTGTTGCATGTGACGAAGGATTATGAAAGGATCCCACAATCAAGAAgtgtgtgact ... tactatgtagGTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatgtagttctccaatgaattatcttaatatcatctcttttgctactatgtagGTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAATTGTTGAAGCATGTCGTGGATGAGAGGACTTCGGACGAAGAAAAGGCCTT
                        tcttaat  putative branch site (score: 3)
                                tcatctcttttgct  CT-rich tract
               aatgaattatcttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgtgacttttactcctctctaattgaaataatcatgtagttctccaatgaattatcttaatatcatctcttttgctactatgtagGTGTTTATGCACCATTATCTCCCTCTTTGACAACTAGATTAAATGGAGAATTGTTGAAGCATGTCGTGGATGAGAGGACTTCGGACGAAGAAAAGGCCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA