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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatgctgattgtaaggttgtttctgcttggtattgaacttgtttttgtgatacttccttacatggactcattttttgttagcagCTTGAAGATGGGGACATAATCTGTTTTCAAAAATCTTCAAAGGCAGATAGTGCTGACCGATATCGATTTCCTGACGTACCATCCTTTTTGACGTATATAC

Basic information

species Zea mays
transcript GRMZM2G018508_T02
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G018508_T03 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os07g06950.1 (Oryza sativa), 3'ss of exon 21
gtaaatgctgattgtaaggttgtttctgcttggtattgaacttgtttttgtgatact-tccttacatggactcattttttgttagcagCTTGAAGATGGGGACATAATCTGTTTTCAAAAATCTTCAAAGGCAGATAGTGCTGACCGATATCGATTTCCTGACGTACCATCCTTTTTGACGTATATAC
|||     ||||| |    || | |        ||     ||||||| | ||||| | || |||| ||||   || |||||    |||||||||||||| |||||  | ||||||||||||||| ||||| |||||| |||||||| |||| |||  ||||| || ||||||||| ||  ||||||||
gtatggcgtgattttt---ttttcttgaaccaataacattcttgtttctatgatattatctttacctgga---atcttttgcgtacagCTTGAAGATGGTGACATCGTTTGTTTTCAAAAATCTCCAAAGCCAGATACTGCTGACCAATATAGATACCCTGATGTCCCATCCTTTCTGGTGTATATAC
















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|40286963|gb|CK327355.1|CK327355
EST:     ATGTGATGTGTGAATACATTGATAACAGGCTTCTGTTCCGATCTTGCCAG                         CTTGAAGATGGGGACATAATTTGTTTTCAAAAATCTTCAAAGGCAGATAGT
genomic: ATGTGATGTGTGAATACATTGATAACAGGCTTCTGTTCCGATCTTGCCAGgtaaatgctg ... ttgttagcagCTTGAAGATGGGGACATAATCTGTTTTCAAAAATCTTCAAAGGCAGATAGT
EST: gi|60396042|gb|DN228912.1|DN228912
EST:     ATGTGATGTGTGAATACATTGATAACAGGCTTCTGTTCCGATCTTGCCAG                         CTTGAAGATGGGGACATAATCTGTTTTCAAAAATCTTCAAAGGCAGATAGT
genomic: ATGTGATGTGTGAATACATTGATAACAGGCTTCTGTTCCGATCTTGCCAGgtaaatgctg ... ttgttagcagCTTGAAGATGGGGACATAATCTGTTTTCAAAAATCTTCAAAGGCAGATAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtattgaacttgtttttgtgatacttccttacatggactcattttttgttagcagCTTGAAGATGGGGACATAATCTGTTTTCAAAAATCTTCAAAGGCAGATAGTGCTGACCGATATCGATTTCCTGACGTACCATCCTTTTTGACGTATATAC
                         tccttac  putative branch site (score: 2)
                                     ctcatttttt  putative PPT
                                        attttttgtta  TA-rich tract