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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttttcccttaatctcctcacatgttatcttcagtccatacatgactcaaccttttatttgctgactacaaagttctttcttctgttcttctgttctagGGGAGGATGCCTGATATCCAGCTGGGATGCCACACTATAAGGTCCCATGGTACCAAAGTGGCAACATTACACATGTATGACTGGATTATACTTTTATGTC

Basic information

species Zea mays
transcript GRMZM2G447433_T09
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g27040.1 (Oryza sativa), 3'ss of exon 2
ttttttcccttaatctcctcacatgttatcttcagtccatacatgactcaacc-------ttttatttgctgactacaaagttctttcttctgttcttctgttctagGGGAGGATGCCTGATATCCAGCTGGGATGCCACACTATAAGGTCCCATGGTACCAAAGTGGCAACATTACACATGTATGACTGGATTATACTTTTATGTC
   ||||  ||      |||| |||  |||   ||| ||||     | |   |       || |||||||   || |  | | |   ||||  || |  | ||  |||| |  ||||||||||||||| | || ||||||||||||||||||||||| ||||  ||||||| | | ||||||||||||||||| |||||| | | ||
---tttctgtttgcacactcatatg--atcactagttcatattgaccacgttcatgttagttatatttgcc--ctgctgattccaagcttcctttttgattttacagGGAAAAATGCCTGATATCCAGTTAGGGTGCCACACTATAAGGTCCCATGGAACCAGTGTGGCAAGACTCCACATGTATGACTGGATAATACTTCTCTTTC
















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|211181950|gb|FL254913.1|FL254913
EST:     ATCTGAACCAGCGCAGTTTATCAGGGACGTAGCACTGTAGCAGTGAGTTG                         GGGAGGATGCCTGATATCCAGCTGGGATGCCACACTATAAGGTCCCATGGT
genomic: ATCTGAACCAGCGCAGTTTATCAGGGACGTAGCACTGTAGCAGTGAGTTGgtgagctctc ... tctgttctagGGGAGGATGCCTGATATCCAGCTGGGATGCCACACTATAAGGTCCCATGGT
EST: gi|71448322|gb|DR829372.1|DR829372
EST:     ATCTGAACCAGCGCAGTTTATCAGGGACGTAGCACTGTAGCAGTGAGTTG                         GGGAGGATGCCTGATATCCAGCTGGGATGCCACACTATAAGGTCCCATGGT
genomic: ATCTGAACCAGCGCAGTTTATCAGGGACGTAGCACTGTAGCAGTGAGTTGgtgagctctc ... tctgttctagGGGAGGATGCCTGATATCCAGCTGGGATGCCACACTATAAGGTCCCATGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actcaaccttttatttgctgactacaaagttctttcttctgttcttctgttctagGGGAGGATGCCTGATATCCAGCTGGGATGCCACACTATAAGGTCCCATGGTACCAAAGTGGCAACATTACACATGTATGACTGGATTATACTTTTATGTC
               tgctgac  putative branch site (score: 2)
                             ttctttcttctgttct  putative PPT
        ttttattt  TA-rich tract