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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctgagcaacagatcctcaattctcattcattaagtggcaacatagtcgttcatgcagttaccgatacccagtcatttgacacctctctggtttgtgcagGTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACTCTACAGCATGCGCATGACATGCTATTGGTGAAAAATCCAAAGACAGTTC

Basic information

species Zea mays
transcript GRMZM2G037624_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G037624_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G04600.1 (Glycine max), 3'ss of exon 2
cctgagcaacagatcctcaattctcattcattaagtggcaac-atagtcgttcatgcagttaccgatacccagtcatttgacacctctctggtttgtgcagGTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACTCTACAGCATGCGCATGACATGCTATTGGTGAAAAATCCAAAGACAGTTC
  |   |      |     | |   || |  | ||    | | |  | | || ||    || ||     | |   |    | |      || ||  | ||||| || || || |||||||| ||||||||||| ||||| || ||||| || ||||| ||||| |||||||   | |||||  ||||| |   ||| || |
attattcttactttagaggagtaagatcctatgagcacaagctagtgcctttaatatcatt-cctccttcaaacaaaggtaaattgggatgattgttacagGTGAGCGAGATACTTGATTCAGAGCTGCTGGGCGAGGGGCTTATACCGACCCTACAACATGCACATGACAATTTGTTGGTAGAAAATGCTCTGACTGTGC

upper sequence: GRMZM2G037624_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv02s0154g00540.t01 (Vitis vinifera), 3'ss of exon 2
--cctgagcaacagatcctcaattctcattcattaagtggcaacatagtcgttcatgcagttaccgatacccagtcatttgacacctctctggttt--gtgcagGTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACTCTACAGCATGCGCATGACATGCTATTGGTGAAAAATCCAAAGACAGTTC
    ||| ||    ||  |   |  |||  |||  | ||   ||||    |  | |  | | |  | |  | | |   |  |   || |    | |   ||||||| ||||| || || || || ||| ||||||| || || || ||||| ||| |||| ||||| |||||||||||||| ||| ||||| |||| || || |
gctttgatcagttaat--ttggtggtcaggcat--actgcatacatcactggacgtcgattcattgttttcaaatttataaagcactttgaaatcttaatgcagGTTAGTGAGATACTAGACTCAGAGTTGCTGGGGGAAGGGCTTATACCGACTTTACAACATGCACATGACATGCTATTAGTGGAAAATGCAAAAACCGTGC
















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|149056983|gb|EE156539.2|EE156539
EST:     CAGATGAGCTCGGAGTTGGAGTCGAGCTTGATTCTCGACCTGATATATTG                         GTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACT
genomic: CAGATGAGCTCGGAGTTGGAGTCGAGCTTGATTCTCGACCTGATATATTGgtaaccctct ... gtttgtgcagGTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACT
EST: gi|31355523|gb|CD439880.1|CD439880
EST:     CAGATGAGCTCGGAGTTGGAGTCGAGCTTGATTCTCGACCTGATATATTG                         GTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACT
genomic: CAGATGAGCTCGGAGTTGGAGTCGAGCTTGATTCTCGACCTGATATATTGgtaaccctct ... gtttgtgcagGTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACT
EST: gi|5566862|gb|AI881773.1|AI881773
EST:     CAGATGAGCTCGGAGTTGGAGTCGAGCTTGATTCTCGACCTGATATATTG                         GTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACT
genomic: CAGATGAGCTCGGAGTTGGAGTCGAGCTTGATTCTCGACCTGATATATTGgtaaccctct ... gtttgtgcagGTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACT
EST: gi|76012269|gb|DT939439.1|DT939439
EST:     CAGATGAGCTCGGAGTTGGAGTCGAGCTTGATTCTCGACCTGATATATTG                         GTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACT
genomic: CAGATGAGCTCGGAGTTGGAGTCGAGCTTGATTCTCGACCTGATATATTGgtaaccctct ... gtttgtgcagGTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACT
EST: gi|71450154|gb|DR831204.1|DR831204
EST:     CAGATGAGCTCGGAGTTGGAGTCGAGCTTGATTCTCGACCTGATATATTG                         GTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACT
genomic: CAGATGAGCTCGGAGTTGGAGTCGAGCTTGATTCTCGACCTGATATATTGgtaaccctct ... gtttgtgcagGTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcgttcatgcagttaccgatacccagtcatttgacacctctctggtttgtgcagGTAAGTGAAATTCTTGATTCTGAGCTGCTGGGTGAGGGTCTCATACCTACTCTACAGCATGCGCATGACATGCTATTGGTGAAAAATCCAAAGACAGTTC
                             atttgac  putative branch site (score: 4)