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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgggcgagaacgcatgacgattaggtctccaaacccggctgaaagcacgatgttttagctgtactgattgcatggccttcttcacgcacaggcacgctagctaatttcagctttgggtccttttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAAGCGGGGCATGAGTGGCGAGCCTTTGCCGTCGCACAACCGGAGCCTCTTT

Basic information

species Zea mays
transcript GRMZM2G052476_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G052476_T03 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os03g55890.1 (Oryza sativa), 3'ss of exon 10
gtatgggcgagaacgcatgacgattaggtctccaaacccggctgaaagcacgatgttttagctgtactgattgcatggccttcttcacgcacaggcacgctagctaatttcagctttgggtccttttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAAGCGGGGCATGAGTGGCGAGCCTTTGCCGTCGCACAACCGGAGCCTCTTT---
     |   || |  |||||  ||||||||   ||| |  | | ||||    || ||    |||||||||||  || ||             | ||| ||||    |||  |  | | | ||||||||||||||||| ||||    ||  ||||  |||| |||| ||||||||||||| ||||||  ||||||| ||||| |||||||||||| |||||| | ||||||||||   
-----gtaaagcaaacatgattattaggtc---aaaactagttaaaagtgtaatattcacactgtactgattatatagc-------------aagcatgcta----attctatgtgttgttccttttaatgcagTGGTTACGT---ACTTTGCTTCACCCAAGGATCAAAAGCAAAGTGGGCAAAGTAGGGCATGTGTGGCAAGCCTTTGCCGTTGCACAATCAGAGCCTCTTTTAC
















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|71430897|gb|DR811947.1|DR811947
EST:     CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAG                         TGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
genomic: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
EST: gi|160481510|gb|EY254342.1|EY254342
EST:     CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAG                         TGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCA
genomic: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCA
EST: gi|76281673|gb|DV021241.1|DV021241
EST:     CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAG                         TGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
genomic: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
EST: gi|160481374|gb|EY254288.1|EY254288
EST:     CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAG                         TGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
genomic: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
EST: gi|71761823|gb|DR959760.1|DR959760
EST:     CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAG                         TGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA
genomic: CCGTTATCCAGAGCGTTGTTCTTGGATGTACCACGCACTGCCCCGGACAGgtatgggcga ... tttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcttcacgcacaggcacgctagctaatttcagctttgggtccttttaatgcagTGGCTACGACGGACGCTGCTCTACCCCAGGACCAAAAGCAAAGTGAGCAAAGCGGGGCATGAGTGGCGAGCCTTTGCCGTCGCACAACCGGAGCCTCTTT
                                            ttttaat  putative branch site (score: 3)
                                         tcctttt  CT-rich tract
                                            ttttaat  TA-rich tract