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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgcacttcttttcttgttccgtgcttgttttataccttctatctgaattaatgaatttttcataagacataagcctctgtccagtatactggcctattgcaattgaacagaaagttgtctctctaacttcatttacagACAGAAATCAAGGGTGTACGCCATCCTCATGGCTTAGCTGAGGGATGGAAATGGCTCGCCATGTTCCTCAATTCTCTTCCAGCTACTACAGCCACTGCTT

Basic information

species Zea mays
transcript GRMZM2G417217_T02
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G417217_T03 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os02g38250.1 (Oryza sativa), 3'ss of exon 13
gtgtgtgcacttcttttcttgttccgtgcttgttttataccttctatctgaattaatgaatttttcataagacataagcctctgtccagtatactggcctattgcaattgaacagaaagttgtctctctaacttcatttacagACAGAAATCAAGGGTGTACGCCATCCTCATGGCTTAGCTGAGGGATGGAAATGGCTCGCCATGTTCCTCAATTCTCTTCCAGCTACTACAGCCACTGCTT
                                         | |  | | |  | ||   ||| |  | ||    |  | ||||| ||  | | ||   | ||  | ||  |    || |     | | |  ||  | ||||||| ||||| | ||| || || ||||| ||||||||||||||||| ||||||||||| ||||||||||| ||| |||| || || || ||||| |||||||
----------------------------------------ataccgtttcatatgatcgttttatt-tgagcagcagacttctgttcaacaaattga--tgttttatttagaattgaaatacaaccgcaatttttttctacagACCGAAATTAGGGGCGTGCGGCATCCACATGGCTTAGCTGAGGGGTGGAAATGGCTTGCCATGTTCCTTAATACTCTCCCGGCCACCACAGCAACTGCTT
















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|31355428|gb|CD439785.1|CD439785
EST:     ATCTAACATATGTCGTTGCATATGTCAAATTGTACGCGGCAATGATTCAA                         ACAGAAATCAAGGGTGTACGCCATCCTCATGGCTTAGCTGAGGGATGGAAA
genomic: ATCTAACATATGTCGTTGCATATGTCAAATTGTACGCGGCAATGATTCAAgtgtgtgcac ... tcatttacagACAGAAATCAAGGGTGTACGCCATCCTCATGGCTTAGCTGAGGGATGGAAA
EST: gi|149076572|gb|EE165207.2|EE165207
EST:     CGTTGCATATGTCAAATTGTACGCGGCAATGATTCAA                         ACAGAAATCAAGGGTGTACGCCATCCTCATGGCTTAGCTGAGGGATGGAAA
genomic: CGTTGCATATGTCAAATTGTACGCGGCAATGATTCAAgtgtgtgcac ... tcatttacagACAGAAATCAAGGGTGTACGCCATCCTCATGGCTTAGCTGAGGGATGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatactggcctattgcaattgaacagaaagttgtctctctaacttcatttacagACAGAAATCAAGGGTGTACGCCATCCTCATGGCTTAGCTGAGGGATGGAAATGGCTCGCCATGTTCCTCAATTCTCTTCCAGCTACTACAGCCACTGCTT
                                     ctctaac  putative branch site (score: 2)
                                           cttcattt  CT-rich tract
                                            ttcattta  TA-rich tract