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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggaaagtttattatccatacaaaaagcagtgtttattggcttgaattcatgctcacaagtcacaaccatcaaccatctccatagtttccggtgtttcaatgatacttgatctattcaagctggtacttttgcagGAACTGTTCGCTCTCTTCGATCCTGTGCATGGTGCTAAAAAACTCGAGCAGCAGAACTTCCTACCTGAGGAAATCGACACGCTTGAGCAGAACTTCCTGT

Basic information

species Zea mays
transcript GRMZM2G161168_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|71426968|gb|DR808018.1|DR808018
EST:     TTGAGTACACCATAAGGGCTTGGTACCATCTCCAGTTTGATGATATGATG                         GAACTGTTCGCTCTCTTCGATCCTGTGCATGGTGCTAAAAAACTCGAGCAG
genomic: TTGAGTACACCATAAGGGCTTGGTACCATCTCCAGTTTGATGATATGATGgtgaggaaag ... acttttgcagGAACTGTTCGCTCTCTTCGATCCTGTGCATGGTGCTAAAAAACTCGAGCAG
EST: gi|26557524|gb|CA829759.1|CA829759
EST:     GCTTGGTACCATCTCCAGTTTGATGATATGATG                         GAACTGTTCGCTCTCTTCGATCCTGTGCATGGTGCTAAAAAACTCGAGCAG
genomic: GCTTGGTACCATCTCCAGTTTGATGATATGATGgtgaggaaag ... acttttgcagGAACTGTTCGCTCTCTTCGATCCTGTGCATGGTGCTAAAAAACTCGAGCAG
EST: gi|93015466|gb|EB640986.1|EB640986
EST:     TTGAGTACACCATAAGGGCTTGGTACCATCTCCAGTTTGATGATATGATG                         GAACTGTTCGCTCTCTTCGATCCTGTGCATGGTGCTAAAAAACTCGAGCAG
genomic: TTGAGTACACCATAAGGGCTTGGTACCATCTCCAGTTTGATGATATGATGgtgaggaaag ... acttttgcagGAACTGTTCGCTCTCTTCGATCCTGTGCATGGTGCTAAAAAACTCGAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catagtttccggtgtttcaatgatacttgatctattcaagctggtacttttgcagGAACTGTTCGCTCTCTTCGATCCTGTGCATGGTGCTAAAAAACTCGAGCAGCAGAACTTCCTACCTGAGGAAATCGACACGCTTGAGCAGAACTTCCTGT
                        acttgat  putative branch site (score: 5)
                                            tactttt  putative PPT
              tttcaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggaaagtttattatccatacaaaaagcagtgtttattggcttgaattcatgctcacaagtcacaaccatcaaccatctccatagtttccggtgtttcaatgatacttgatctattcaagctggtacttttgcagGAACTGTTCGCTCTCTTCGATCCTGTGCATGGTGCTAAAAAACTCGAGCAGCAGAACTTCCTACCTGAGGAAATCGACACGCTTGAGCAGAACTTCCTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG