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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttacttcctgaatcatcatacactgcagtaatttcagttttcttcttttgaatccttgtttgaaagctgaatgctatcttacatcctttagGTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACGATGCAGAG

Basic information

species Zea mays
transcript GRMZM2G096389_T05
intron # 12
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|29544564|gb|CB604944.1|CB604944
EST:     TGAGGGACTCATAAATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAG                         GTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCT
genomic: TGAGGGACTCATAAATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAGgtttgttact ... catcctttagGTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCT
EST: gi|211023732|gb|FL449221.1|FL449221
EST:     TGAGGGACTCATAAATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAG                         GTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACG
genomic: TGAGGGACTCATAAATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAGgtttgttact ... catcctttagGTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACG
EST: gi|76018788|gb|DT945958.1|DT945958
EST:     TGAGGGACTCATAAATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAG                         GTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACG
genomic: TGAGGGACTCATAAATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAGgtttgttact ... catcctttagGTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACG
EST: gi|78120367|gb|DV538751.1|DV538751
EST:     TGAGGGACTCATAAATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAG                         GTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACG
genomic: TGAGGGACTCATAAATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAGgtttgttact ... catcctttagGTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACG
EST: gi|60396686|gb|DN229553.1|DN229553
EST:     AATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAG                         GTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACG
genomic: AATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAGgtttgttact ... catcctttagGTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACG
EST: gi|211122767|gb|FL444236.1|FL444236
EST:     TGAGGGACTCATAAATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAG                         GTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACG
genomic: TGAGGGACTCATAAATGACTCTATGCCACCCAAGGATCCTGAAGAGGGAGgtttgttact ... catcctttagGTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttcttcttttgaatccttgtttgaaagctgaatgctatcttacatcctttagGTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACGATGCAGAG
                                       atcttac  putative branch site (score: 3)
                                             catccttt  CT-rich tract
         ttttgaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgttacttcctgaatcatcatacactgcagtaatttcagttttcttcttttgaatccttgtttgaaagctgaatgctatcttacatcctttagGTGAAAATTGTGAAGGCAATGCAGATCCAGAAAGCCTTTCTGACATTGACGATGCAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT