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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgataacatactgcattatacttgaggaggctaatactttaacataagtattgaaccttgagtgcattacactgcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGCAGATATCGTTGTGGTTGGCATTAACATAACAACACAAGTCTGCCTGACAG

Basic information

species Zea mays
transcript GRMZM2G015344_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G015344_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os08g44370.1 (Oryza sativa), 3'ss of exon 5
--------------gtatgataacatactgcattatacttgaggaggctaa-tactttaacataagtattgaaccttgagtgcattacactgcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGCAGATATCGTTGTGGTTGGCATTAACATAACAACACAAGTCTGCCTGACAG
              | ||  ||   || ||| || ||| ||   ||   || ||| || ||| ||||||| |   ||   ||||| || ||||||||  ||||||| |||||||||||||||||||||||||| |||||||||||| | |  ||||||||||||||||||||||| ||||||||  | ||||
gtaatgtcattattgcatattagactagtgc-ttgtacatggacagaaaaaatacattgacacaagtattaagttttcgctgcataactctgcagATATATGGAGATCCAGAAGCAGCTGACATAGTTTTTACCTCAGGAGCAGATGTTGACGTGGTTGGCATTAACATAACAACTCAAGTCTGTTTTACAG

upper sequence: GRMZM2G015344_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA03G35170.1 (Glycine max), 3'ss of exon 5
-----------------gtatg-ataacatactgcattatacttgaggaggctaatac-tttaacataagtattgaaccttgagtgcattacact-gcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGCAGATATCGTTGTGGTTGGCATTAACATAACAACACAAGTCTGCCTGACAG
                   ||| ||  ||| ||    ||  ||  |  |    | | | ||| | ||  ||  |   ||    |   |||  ||| |||||||||||||||||| ||||| || || || || ||||| || || |||||||| |||||  |||| || ||||| ||||| ||||||    | ||||
tggtcgtaacggctaataaatggattccattctaggctaatctcaataatttgatttcatttcaaatgggtcctagtccaaatgactattctacttgcagATCCATGGAGACCCGGAAGCCGCAGATATTGTGTTTACCTCTGGGGCAGATATTGTTGTTATTGGAATAAACATTACAACCCAAGTCCAATTCACAG
















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|89759746|gb|DY688465.1|DY688465
EST:     GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAAT                         ATCCATGGAGACCCAGAAGCAGCTGACATAGTTT
genomic: GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAATgtatgataac ... tacactgcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTT
EST: gi|71318567|gb|DR796043.1|DR796043
EST:     GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAAT                         ATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGC
genomic: GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAATgtatgataac ... tacactgcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGC
EST: gi|71449461|gb|DR830511.1|DR830511
EST:     GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAAT                         ATCCATGGAGACCCAGAAGCAGCTGACATAGTTT
genomic: GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAATgtatgataac ... tacactgcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTT
EST: gi|76935894|gb|DV174515.1|DV174515
EST:     GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAAT                         ATCCATGGAGACTCAGAAGCAGCTGACATAGTTTTTACT
genomic: GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAATgtatgataac ... tacactgcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACT
EST: gi|71438819|gb|DR819869.1|DR819869
EST:     GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAAT                         ATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGCAGAT
genomic: GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAATgtatgataac ... tacactgcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGCAGAT
EST: gi|78105410|gb|DV523828.1|DV523828
EST:     GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAAT                         ATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGCAGAT
genomic: GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAATgtatgataac ... tacactgcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGCAGAT
EST: gi|76290576|gb|DV030144.1|DV030144
EST:     GTGGAGCTTTCTTTGCGGCTGGGAATGTCAACCCTGCTGCTGAAGCAA-T                         ATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGCAGAT
genomic: GTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAATgtatgataac ... tacactgcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGCAGAT
EST: gi|71439185|gb|DR820235.1|DR820235
EST:     TGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTNGA-GCAAAT                         ATCCATGGAGACCC
genomic: TGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCT-GAAGCAAATgtatgataac ... tacactgcagATCCATGGAGACCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaggaggctaatactttaacataagtattgaaccttgagtgcattacactgcagATCCATGGAGACCCAGAAGCAGCTGACATAGTTTTTACTTCAGGAGCAGATATCGTTGTGGTTGGCATTAACATAACAACACAAGTCTGCCTGACAG
              ctttaac  putative branch site (score: 3)
         taatactttaacataa  TA-rich tract