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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttgatgtgttagctgatgttatacttgtaggttattgctgattagattgtgtcatgctcctttcttttattctgtttaattcattattttttttggcagCAATTAGAGTTGCTGGAATTGGAAGTTGCCCCCTTCATGGACATCACTATACCTGGAGTAACTCAAATGGTTTTCCTCAAAGCCCCTCTGCTCCAATGAT

Basic information

species Zea mays
transcript GRMZM2G156956_T02
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G156956_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os05g01240.1 (Oryza sativa), 3'ss of exon 10
--------------------------------------------------------------------------gttgatgtgttagctgatgttatact-tgtaggttattg-ctgattagattgtgtcatgctcctttcttttattctgtttaattcattattttttttggcagCAATTAGAGTTGCTGGAATTGGAAGTTGCCCCCTTCATGGACATCACTATACCTGGAGTAACTCAAATGGTTTTCCTCAAAGCCCCTCTGCTCCAATGAT
                                                                          ||  |  | || |   || ||  |   ||||| | ||    |||  || ||   | ||  |  ||  |   |||   |          ||| ||||| |||||| || |  || ||| ||||||||||||||||||||||||| ||||||| |||||||   || |||||| |||||| ||||| ||||| ||||||||  |
gtaacagttctcagcttcaactgctcattgttggctttactaacctatgtttttattatcataacaacataatggtgaacctttttggaaatattggatgatgtagttgatgaattgaccagctta-atgattttttttgttagaatttcatcagcacagaaattgttttttgcagCATTTGGCTTTACTGAAATTGGAAGTTGCCCCCTTCATGGATATCACTACACCTGGAACCACACAAATGTTTTTCCACAAAGTCCCTCAGCTCCAATACT
















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|33092656|gb|CF052650.1|CF052650
EST:     CAGTGACCTTCATGGTCATTCCTCTGATCAAAATGAAG                         CAATTAGAGTTGCTGGAATTGGAAGTTGCCCCCTTCATGGACATCACTATA
genomic: CAGTGACCTTCATGGTCATTCCTCTGATCAAAATGAAGgtaaaatttc ... tttttggcagCAATTAGAGTTGCTGGAATTGGAAGTTGCCCCCTTCATGGACATCACTATA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattgtgtcatgctcctttcttttattctgtttaattcattattttttttggcagCAATTAGAGTTGCTGGAATTGGAAGTTGCCCCCTTCATGGACATCACTATACCTGGAGTAACTCAAATGGTTTTCCTCAAAGCCCCTCTGCTCCAATGAT
                             gtttaat  putative branch site (score: 4)
                                   ttcattatttttttt  CT-rich tract
                tttcttttattctgtt  TA-rich tract