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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgacatattttggaacagggggagtagtatagattcaatcacatagtttttccctcttccatagcatgttaaatgtaacatctaataatattgatgcagGTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAGCTTCCTTGCACACACTTCTTTCATGTTCAATGTGTAGATAAATGGCTTA

Basic information

species Zea mays
transcript GRMZM2G116952_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G116952_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os09g15430.4 (Oryza sativa), 3'ss of exon 4
atgacatattttggaacaggggga--gtagtatagattcaatcacatagtttt--tccctcttccatagcatgttaaatgt-aacatctaataatattgatgcagGTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAGCTTCCTTGCACACACTTCTTTCATGTTCAATGTGTAGATAAATGGCTTA
   ||  | ||   | |||||     | | ||  | |  | |    |   |||  | | |    |||| ||| | |  ||| |||||||| | ||||   ||||||||||||||||||||||||| ||||| ||||||||||||||||| ||||||||||||||||| |||||||||||||| |||||||| ||||||||||| |
---actaacttgaaaccagggttctcgaaataatgttatagttgttttagtttgattcataagtcataacatataacttgtcaacatctattgatatc--tgcagGTGTGCTGCATCTGTCTTACTAAGTACGGAGATGATGATGAGCTCCGTGAGCTTCCTTGCACCCACTTCTTTCATGTGCAATGTGTCGATAAATGGCTCA
















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|71427246|gb|DR808296.1|DR808296
EST:     TTCTTGGCCCAGGAACTAAGAAGGAAAGAGTTGTTTCAGCTGAAGATGCT                         GTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAG
genomic: TTCTTGGCCCAGGAACTAAGAAGGAAAGAGTTGTTTCAGCTGAAGATGCTgtgagtatat ... attgatgcagGTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAG
EST: gi|89248785|gb|DY620571.1|DY620571
EST:     TTCTTGGCCCAGGAACTAAGAAGGAAAGAGTTGTTTCAGCTGAAGATGCT                         GTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAG
genomic: TTCTTGGCCCAGGAACTAAGAAGGAAAGAGTTGTTTCAGCTGAAGATGCTgtgagtatat ... attgatgcagGTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAG
EST: gi|93011693|gb|EB637213.1|EB637213
EST:     TTCTTGGCCCAGGAACTAAGAAGGAAAGAGTTGTTTCAGCTGAAGATGCT                         GTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAG
genomic: TTCTTGGCCCAGGAACTAAGAAGGAAAGAGTTGTTTCAGCTGAAGATGCTgtgagtatat ... attgatgcagGTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAG
EST: gi|101398872|gb|EB821308.1|EB821308
EST:     TTCTTGGCCCAGGAACTAAGAAGGAAAGAGTTGTTTCAGCTGAAGATGCT                         GTGTGCTGCATCTGTCTTTCGAAGTATGGAGATGATGATGAGCTTCGTGAG
genomic: TTCTTGGCCCAGGAACTAAGAAGGAAAGAGTTGTTTCAGCTGAAGATGCTgtgagtatat ... attgatgcagGTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttttccctcttccatagcatgttaaatgtaacatctaataatattgatgcagGTGTGCTGCATCTGTCTTACGAAGTATGGAGATGATGATGAGCTTCGTGAGCTTCCTTGCACACACTTCTTTCATGTTCAATGTGTAGATAAATGGCTTA
                                            tattgat  putative branch site (score: 3)
                     atgttaaatgtaacat  TA-rich tract