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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatctgttgaaaggtttcatccacaaaatatgtcagttctctgataatagtatctcatattttttattacaagtacattaccagcagtttcatttgtcagGTTACAGGTGATGGTGAAGACAAATATCTCATAGCTACATCAGAGCAGCCTTTATGTGCTTATCACTTAGGTGATAGAATATACCCTGCTGAACTTCCAA

Basic information

species Zea mays
transcript GRMZM2G172101_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G172101_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g10190.1 (Oryza sativa), 3'ss of exon 5
tatctgttgaaaggtttcatcc-acaaaat---atgtcagttctctgataatagtatctcatattttttattacaagtacattaccagcagtttcatttgtcagGTTACAGGTGATGGTGAAGACAAATATCTCATAGCTACATCAGAGCAGCCTTTATGTGCTTATCACTTAGGTGATAGAATATACCCTGCTGAACTTCCAA
       ||| |  ||   ||  |  || |   || |||||  | ||||   ||| | |  | |||  | | |||||| ||| |  || |||| |||||| ||| | ||||| ||||| || || || ||||||||||||||||| ||||| || || ||||| |||||  | |||||| |||| || ||||||||| | ||||
---gaaatgatacattcagtctgatcaagtgtaatttcagtggtatgatgtcagtttttt-tctttaatgtaacaagttcataaaaagtagttccatttgacagCTAACAGGCGATGGAGAGGAAAAGTATCTCATAGCTACATCTGAGCAACCGTTGTGTGCGTATCATCTTGGTGATCGAATTTATCCTGCTGAATTGCCAA
















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|148937654|gb|EC881846.2|EC881846
EST:     CTATGGCAAAATGTGCCCAGTTGGCCCAGTTTGATGAGGAGCTTTACAAA                         GTTACAGGTGATGGTGAAGACAAATATCTCATAGCTACATCAGAGCAGCCT
genomic: CTATGGCAAAATGTGCCCAGTTGGCCCAGTTTGATGAGGAGCTTTACAAAgtaagtctga ... catttgtcagGTTACAGGTGATGGTGAAGACAAATATCTCATAGCTACATCAGAGCAGCCT
EST: gi|31351150|gb|CD435507.1|CD435507
EST:     CTATGGCAAAATGTGCCCAGTTGGCCCAGTTTGATGAGGAGCTTTACAAA                         GTTACAGGTGATGGTGAAGACAAATATCTCATAGCTACATCAGAGCAGCCT
genomic: CTATGGCAAAATGTGCCCAGTTGGCCCAGTTTGATGAGGAGCTTTACAAAgtaagtctga ... catttgtcagGTTACAGGTGATGGTGAAGACAAATATCTCATAGCTACATCAGAGCAGCCT
EST: gi|148931370|gb|EC874280.2|EC874280
EST:     CTATGGCAAAATGTGCCCAGTTGGCCCAGTTTGATGAGGAGCTTTACAAA                         GTTACAGGTGATGGTGAAGACAAATATCTCATAGCTACATCAGAGCAGCCT
genomic: CTATGGCAAAATGTGCCCAGTTGGCCCAGTTTGATGAGGAGCTTTACAAAgtaagtctga ... catttgtcagGTTACAGGTGATGGTGAAGACAAATATCTCATAGCTACATCAGAGCAGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatagtatctcatattttttattacaagtacattaccagcagtttcatttgtcagGTTACAGGTGATGGTGAAGACAAATATCTCATAGCTACATCAGAGCAGCCTTTATGTGCTTATCACTTAGGTGATAGAATATACCCTGCTGAACTTCCAA
                                          tttcattt  CT-rich tract
           atattttttattacaa  TA-rich tract