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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcgttttcaactgaatgataaatttgacgcgttggcttgtcgcatgtgcacttcagtcctgttatttgagtcaataatcatcacatcgtttcctgccagCTGAAAGAGAGGCTATTAGTGCTGCTGAAAAGGCAGAAAGAAAGGCACAGCTTAGAGACAAGGTAAAGATATTTCTAATGCTATACCAGCCGTGTTTTCT

Basic information

species Zea mays
transcript GRMZM2G157332_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G157332_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g13440.1 (Oryza sativa), 3'ss of exon 5
--atcgttttcaactgaatgataaatttgacgcgttggcttgtcgcatgtgcacttcagtcctgttatttgagtcaataatcatcacatcgtttcctgccagCTGAAAGAGAGGCTATTAGTGCTGCTGAAAAGGCAGAAAGAAAGGCACAGCTTAGAGACAAGGTAAAGATATTTCTAATGCTATACCAGCCGTGTTTTCT
   ||   |   ||||        |||| |  | ||    |||| | |    ||||  |      ||||||  |  | |    | ||||| ||| || | |||||||||||| ||| | ||||| || ||||||||||| |||||||  ||||||||||| ||                                       
atttccactggcactggtcttgttatttcattcctttctctgtctctttgttacttgtgattacatatttgtttttacagct-taacatcttttgctac-agCTGAAAGAGAAGCTGTGAGTGCAGCAGAAAAGGCAGAGAGAAAGGTGCAGCTTAGAGATAAA--------------------------------------
















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|211490912|gb|FK946181.1|FK946181
EST:     TGTGAACCGCTTGAATAAGACAAAGGTGGAACGGAAACCTGATTTAAAGG                         CTGAAAGAGAGGCTAT
genomic: TGTGAACCGCTTGAATAAGACAAAGGTGGAACGGAAACCTGATTTAAAGGgtatgtcaca ... ttcctgccagCTGAAAGAGAGGCTAT
EST: gi|149109676|gb|EE293462.2|EE293462
EST:     TGTGAACCGCTTGAATAAGACAAAGGTGGAACGGAAACCTGATTTTAAGG                         CTGGAAGAAAGGCTATTAGTGCTGGTGAA
genomic: TGTGAACCGCTTGAATAAGACAAAGGTGGAACGGAAACCTGATTTAAAGGgtatgtcaca ... ttcctgccagCTGAAAGAGAGGCTATTAGTGCTGCTGAA
EST: gi|60399482|gb|DN232294.1|DN232294
EST:     TGTGAACCGCTTGAATAAGACAAAGGTGGAACGGAAACCTGATTTAAAGG                         CTGAAAGAGAGGCTATTAGTGCTGCTGAAAAGGCAGAAAGAAA
genomic: TGTGAACCGCTTGAATAAGACAAAGGTGGAACGGAAACCTGATTTAAAGGgtatgtcaca ... ttcctgccagCTGAAAGAGAGGCTATTAGTGCTGCTGAAAAGGCAGAAAGAAA
EST: gi|211496693|gb|FK946217.1|FK946217
EST:     GTGAACCGCTTGAATAAGACAAAGGTGGAACGGACACCCTGATTTAAAGG                         CTGACAGAGAGGCTATTTAGTGCTGCTGAAAAGGCAGAAAGAAAAGCACAG
genomic: GTGAACCGCTTGAATAAGACAAAGGTGGAACGGAAACC-TGATTTAAAGGgtatgtcaca ... ttcctgccagCTGAAAGAGAGGCTATT-AGTGCTGCTGAAAAGGCAGAAAGAAAGGCACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgcacttcagtcctgttatttgagtcaataatcatcacatcgtttcctgccagCTGAAAGAGAGGCTATTAGTGCTGCTGAAAAGGCAGAAAGAAAGGCACAGCTTAGAGACAAGGTAAAGATATTTCTAATGCTATACCAGCCGTGTTTTCT
                                         tcgtttcct  CT-rich tract
                            aataatcat  TA-rich tract