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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggagtttaggtactgagatgatacaacactataagtttaagtaccgccagtgtatatttattctattcttattatagacatctgaataactccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCCAAGAAAGCTGCTTAGCATTAGCGCATTGAAGATGTTGCAAATCTTCAAT

Basic information

species Zea mays
transcript GRMZM2G172152_T01
intron # 5
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|91878801|gb|EB408758.1|EB408758
EST:     TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAG                         GTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
genomic: TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
EST: gi|71306315|gb|DR789300.1|DR789300
EST:     GCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAG                         GTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
genomic: GCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
EST: gi|211025722|gb|FL435830.1|FL435830
EST:     TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAG                         GTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTHTAGGCCATCC
genomic: TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
EST: gi|71763911|gb|DR961848.1|DR961848
EST:     TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGT---                         -T-GAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
genomic: TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
EST: gi|211249724|gb|FL399200.1|FL399200
EST:     TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAG                         GTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
genomic: TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
EST: gi|71763743|gb|DR961680.1|DR961680
EST:     TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAG                         GTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTTTAGGCCATCC
genomic: TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
EST: gi|211219779|gb|FL407451.1|FL407451
EST:     TGTATTCAGGCTACTTCCAGAAGACAGGAGACAGAGATGGCACTAGTAAG                         GTTGAAGATAATGACAGTGAAGATAGTGGTAC
genomic: TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTAC
EST: gi|91055454|gb|EB165872.1|EB165872
EST:     TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAG                         GTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
genomic: TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
EST: gi|6695498|gb|AW288606.1|AW288606
EST:     TGTATTCAGGCTACTTCCAGAAGNCAGCAGACAGAGATGGCCCTAGTAAG                         GTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
genomic: TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
EST: gi|76291509|gb|DV031077.1|DV031077
EST:     TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAG                         GTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTTTAGGCCATCC
genomic: TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
EST: gi|32827786|gb|CD967464.1|CD967464
EST:     TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAG                         GTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC
genomic: TGTATTCAGGCTACTTCCAGAAGACAGCAGACAGAGATGGCACTAGTAAGgtactccctc ... ctccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgccagtgtatatttattctattcttattatagacatctgaataactccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCCAAGAAAGCTGCTTAGCATTAGCGCATTGAAGATGTTGCAAATCTTCAAT
                                       gaataac  putative branch site (score: 2)
                                             ctccttac  CT-rich tract
        tatatttattctattc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gggagtttaggtactgagatgatacaacactataagtttaagtaccgccagtgtatatttattctattcttattatagacatctgaataactccttacagGTTGAAGATAATGACAGTGAAGATAGTGGTACGAGCATCTCTAGGCCATCCAAGAAAGCTGCTTAGCATTAGCGCATTGAAGATGTTGCAAATCTTCAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG