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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagaattggccaacataaatttctgctttgtgctttgcatgaactttgatttgaagcaacaaaaatacttgctaacggtttaccttggtcaataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGATCTCGTCACGTGACCACCACTCTCTCCGATGTATAGTTAATAAGGAGTT

Basic information

species Zea mays
transcript GRMZM2G107575_T01
intron # 7
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|78544021|gb|DV621519.1|DV621519
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|86466680|gb|DY233050.1|DY233050
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGATTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|76018011|gb|DT945181.1|DT945181
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|22542695|gb|BU093133.1|BU093133
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|211255132|gb|FL091665.1|FL091665
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|71320552|gb|DR797017.1|DR797017
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|78085933|gb|DV514326.1|DV514326
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACTACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGA
EST: gi|4647631|gb|AI622706.1|AI622706
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|60358131|gb|DN225104.1|DN225104
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|14203857|gb|BG837534.1|BG837534
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|16918239|gb|BM073651.1|BM073651
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|149016909|gb|EE045638.2|EE045638
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTC
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTC
EST: gi|67010361|gb|CO439110.1|CO439110
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|60338952|gb|DN205925.1|DN205925
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|86468276|gb|DY234646.1|DY234646
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGATTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|78085932|gb|DV514325.1|DV514325
EST:     GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTGGAGGA
genomic: GTCACAAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|12972563|gb|BG268044.1|BG268044
EST:     AAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: AAGAAATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
EST: gi|71317610|gb|DR795552.1|DR795552
EST:     ATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAA                         GGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA
genomic: ATCCTTCCTTGATGAAGATAATGACTCTGCCATACCTCAAgtaagaatgt ... aataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatttgaagcaacaaaaatacttgctaacggtttaccttggtcaataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGATCTCGTCACGTGACCACCACTCTCTCCGATGTATAGTTAATAAGGAGTT
                        tgctaac  putative branch site (score: 1)
            aacaaaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cagaattggccaacataaatttctgctttgtgctttgcatgaactttgatttgaagcaacaaaaatacttgctaacggtttaccttggtcaataattcagGGACATAACAACAACATTCCCTAGCTTTGTGTTTAACTCGGAAGTCGACGATCTCGTCACGTGACCACCACTCTCTCCGATGTATAGTTAATAAGGAGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - caacata
- - - - - - - - - - ttctgct
- - - - - - - - - - - - - - tgtgctt
- - - - - - - - - - - - - - - - - -tgcatga
- - - - - - - - - - - - - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tacttgc