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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaatcttgtagaacattaccttttcatttcatatttagaagatacttctcaacctctggctgttatttggaggactggagtgcactaatatacgcagttctttatggcagATGGGAATGAGGTAGTGAGTAATATAGCCATTTCAAAGGTTCCGGCAAAAGCTGGTCTGGATGCAAAATTTAAAGCACTGGAGCGTGCTGAAAATGCTTA

Basic information

species Zea mays
transcript GRMZM2G039683_T02
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G039683_T01 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os02g54020.1 (Oryza sativa), 3'ss of exon 17
gtagaatcttgtagaacattaccttttcatttcatatttagaagatacttctcaacctctggctgttatttggaggactggagtgcactaatatacgcagttctttatggcagATGGGAATGAGGTAGTGAGTAATATAGCCATTTCAAAGGTTCCGGCAAAAGCTGGTCTGGATGCAAAATTTAAAGCACTGGAGCGTGCTGAAAATGCTTA
                                      ||||    || | |   |||||   |  |   |  | |      |||||||||| |  |  |    | |||||||||||||| ||||| ||||| ||||  |||||||||||| | ||  ||||||| || || |||||||||||| ||||| ||||||||||||||||||||||
-------------------------------------gtagagctcaccttttcccctct---ttgtgcgtatatggtcactgtgcactaatgtctgtgggg--taatggcagATGGGAAGGAGGTGGTGAGCAATACTGCCATTTCAAAGCTCCCATCAAAAGCAGGGCTAGATGCAAAATTTGAAGCATTGGAGCGTGCTGAAAATGCTTA
















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|89761057|gb|DY689223.1|DY689223
EST:     TCGTGAAGATGAGGCGAGCTTATCAGCTGAAGACATATCTGATTCTGATG                         ATGGGAATGAGGTAGTGAGTAATATAGCCATTTCAAAGGTTCCGGCAAAAG
genomic: TCGTGAAGATGAGGCGAGCTTATCAGCTGAAGACATATCTGATTCTGATGgtagaatctt ... tttatggcagATGGGAATGAGGTAGTGAGTAATATAGCCATTTCAAAGGTTCCGGCAAAAG
EST: gi|91878619|gb|EB408576.1|EB408576
EST:     TCGTGAAGATGAGGCGAGCTTATCAGCTGAAGACATATCTGATTCTGATG                         ATGGGAATGAGGTAGTGAGTAATATAGCCATTTCAAAGGTTCCGGCAAAAG
genomic: TCGTGAAGATGAGGCGAGCTTATCAGCTGAAGACATATCTGATTCTGATGgtagaatctt ... tttatggcagATGGGAATGAGGTAGTGAGTAATATAGCCATTTCAAAGGTTCCGGCAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggctgttatttggaggactggagtgcactaatatacgcagttctttatggcagATGGGAATGAGGTAGTGAGTAATATAGCCATTTCAAAGGTTCCGGCAAAAGCTGGTCTGGATGCAAAATTTAAAGCACTGGAGCGTGCTGAAAATGCTTA
                           cactaat  putative branch site (score: 2)
                                          ttctttat  putative PPT
                            actaatata  TA-rich tract