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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattttcctggactttctcaatagctgttgttgacctttgtatgtctgtcctagaatatgttttatcaatcatcagGTGTCAGTTCACAGTATAAGATTGCCAAAAAACAGCACTGTTGGCGATGTGCTAAACGATATCAAAACAAAG

Basic information

species Zea mays
transcript GRMZM2G018508_T02
intron # 21
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 21
lower sequence: LOC_Os07g06950.1 (Oryza sativa), 3'ss of exon 25
gttattttcctgg-actttctc-----aatagctgttgttgacctttgtatgtctgtcctagaatatgttttatca---atcatcagGTGTCAGTTCACAGTATAAGATTGCCAAAAAACAGCACTGTTGGCGATGTGCTAAACGATATCAAAACAAAG
||||||||| ||  || ||||        | |      || ||  | |  ||| | | ||     || ||  | ||    | | |||||||||||||||||||| || |||||||| ||||||||||| || ||||||||||| ||||| ||| |||||
gttattttcttgataccttctttttgtggtggaaaaacttaacaataggttgtttttgctttttaatcttaaaacatgttttaccagGTGTCAGTTCACAGTATTAGGTTGCCAAAGAACAGCACTGTCGGTGATGTGCTAAATGATATAAAATCAAAG
















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|37375031|gb|CF623926.1|CF623926
EST:     AAGCGCTGAAGACATTAAAAGTTACATACCATCATGCCACAAAAGATGAG                         GTGTCAGTTCACAGTATAAGATTGCCAAAAAACAGCACTGTTGGCGATGTG
genomic: AAGCGCTGAAGACATTAAAAGTTACATACCATCATGCCACAAAAGATGAGgttattttcc ... caatcatcagGTGTCAGTTCACAGTATAAGATTGCCAAAAAACAGCACTGTTGGCGATGTG
EST: gi|40286963|gb|CK327355.1|CK327355
EST:     AAGCGCTGAAGACATTAAAAGTTACATGCCATCATGCCACAAAAGATGAG                         GTGTCAGTTCACAGTATAAGATTGCCAAAAAACAGCACTGTTGGCGATGTG
genomic: AAGCGCTGAAGACATTAAAAGTTACATACCATCATGCCACAAAAGATGAGgttattttcc ... caatcatcagGTGTCAGTTCACAGTATAAGATTGCCAAAAAACAGCACTGTTGGCGATGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctgttgttgacctttgtatgtctgtcctagaatatgttttatcaatcatcagGTGTCAGTTCACAGTATAAGATTGCCAAAAAACAGCACTGTTGGCGATGTGCTAAACGATATCAAAACAAAG
       tgttgac  putative branch site (score: 3)
                                       ttttatc  putative PPT
                                 aatatgttttatcaat  TA-rich tract