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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttagagtgcttagttattcttttcttttgttttatgcatatggatggttgacaaatctagttcatgcctccatgtttgtttattctgtcatgcatgaaagGTCACCCATGGCGCAATACAGTTCACGGCCTATGAGGAACTTCGCAAAGCTATGATATTCTTTAAAAGTGCACAATCAAGGGCAGACGACGCAGGAGGCG

Basic information

species Zea mays
transcript GRMZM5G840435_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G840435_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g52430.1 (Oryza sativa), 3'ss of exon 6
ttagagtgcttagttattcttttcttttgttttatgcatatgg-atggttgacaaatctagttcatgcctccatgtttgtttattctgtcatgcatgaaagGTCACCCATGGCGCAATACAGTTCACGGCCTATGAGGAACTTCGCAAAGCTATGATATTCTTTAAAAGTGCACAATCAAGGGCAGACGACGCAGGAGGCG
 ||| ||   |   |||  |  | ||   |     | || ||  ||||||| |||||||| | |||  ||  ||| |  | |||| | ||||||||||||||| || ||||| || |||||||||||||||||||||||||||||||||||| |||||||    ||||||  |||  ||||  ||||| ||  | |  |||
ctagggttgatgcctatggtcattttaattaaccaggatctgacatggttggcaaatctaatacattacttgatgct-atctattgtttcatgcatgaaagGTTACTCATGGAGCGATACAGTTCACGGCCTATGAGGAACTTCGCAAAGCTTTGATATTTGCCAAAAGTAGACAGACAAGAACAGACAACAGAAGCTGCG
















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|71313593|gb|DR793372.1|DR793372
EST:     AGGAGGGATTTCTTGCACTTTATAGGGGAATTGGACCTGGTCTTTTGCTG                         GTCACCCATGGCGCAATACAGTTCACGGCCTATGAGGAACTTCGCAAAGCT
genomic: AGGAGGGATTTCTTGCACTTTATAGGGGAATTGGACCTGGTCTTTTGCTGgtatgtattt ... tgcatgaaagGTCACCCATGGCGCAATACAGTTCACGGCCTATGAGGAACTTCGCAAAGCT
EST: gi|71313594|gb|DR793373.1|DR793373
EST:     AGGAGGGATTTCTTGCACTTTATAGGGGAATTGGACCTGGTCTTTTGCTG                         GTCACCCATGGCGCAATACAGTTCACGGCCTATGAGGAACTTCGCAAAGCT
genomic: AGGAGGGATTTCTTGCACTTTATAGGGGAATTGGACCTGGTCTTTTGCTGgtatgtattt ... tgcatgaaagGTCACCCATGGCGCAATACAGTTCACGGCCTATGAGGAACTTCGCAAAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttgacaaatctagttcatgcctccatgtttgtttattctgtcatgcatgaaagGTCACCCATGGCGCAATACAGTTCACGGCCTATGAGGAACTTCGCAAAGCTATGATATTCTTTAAAAGTGCACAATCAAGGGCAGACGACGCAGGAGGCG
 ggttgac  putative branch site (score: 4)
                             tttgtttatt  TA-rich tract