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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttgatgaaattaagacagcaattctgtattttttttacttgagtatttttgtgagctaacttcaacaatggcagGTATGAAGCTAGTCAGTATTATAGACCACATCATGATTACTTCTCTGACACTGTAAGTTGACCATCTCTAAG

Basic information

species Zea mays
transcript GRMZM2G028004_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G028004_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os04g27850.1 (Oryza sativa), 3'ss of exon 7
gtacttgatgaaattaagacagcaattctgt--attttttttacttgagtatt---------tttgtgagctaacttcaacaatggcagGTATGAAGCTAGTCAGTATTATAGACCACATCATGATTACTTCTCTGACACTGTAAGTTGACCATCTCTAAG
||||| ||  ||   |    |    |||     | || |||  ||||| ||||         |||   ||||||||||||  |   |||||||||| | || || ||||| || ||||||||||||||||| |||||||||                    
gtactagaataaccgacagtattttttcccctaagttctttgccttgattattaatcaatcattttcaagctaacttcaagtactacagGTATGAACCAAGCCAATATTACAGGCCACATCATGATTACTTTTCTGACACT--------------------
















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|74239471|gb|DT647385.1|DT647385
EST:     GTGTTCTCTCAAATACCTAAAGAAAATGGGGAGCTCATTCAAGTATTGAG                         GTATGAAGCTAGTCAGTATTATAGACCACATCATGATTACTTCTCTGACAC
genomic: GTGTTCTCTCAAATACCTAAAGAAAATGGGGAGCTCATTCAAGTATTGAGgtacttgatg ... acaatggcagGTATGAAGCTAGTCAGTATTATAGACCACATCATGATTACTTCTCTGACAC
EST: gi|211001688|gb|FL223536.1|FL223536
EST:     GTTTCTCTCAA-TACCTAAAGAAAATGGGGAGCTCATTTCA-GTATTGAG                         GTATGAAGCTAGTCAGTATTATAGACCACATCATGATTACTTCTCTGAC
genomic: GTT-CTCTCAAATACCTAAAGAAAATGGGGAGCTCATT-CAAGTATTGAGgtacttgatg ... acaatggcagGTATGAAGCTAGTCAGTATTATAGACCACATCATGATTACTTCTCTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattctgtattttttttacttgagtatttttgtgagctaacttcaacaatggcagGTATGAAGCTAGTCAGTATTATAGACCACATCATGATTACTTCTCTGACACTGTAAGTTGACCATCTCTAAG
                                  agctaac  putative branch site (score: 2)
       tattttttttacttga  TA-rich tract