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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacatataatgtactgtacgtgtttctcaatcatgattttagaggtttacaccattcttagctccaccacgaagttcctgtttctttgttggatgatcaattttgccgcctaaactgacgaggattgtatttttctgtatattcgttgacagGTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGAAACCTCGAGATTCGCCACCGAAAATGTCCTGGCTGTGGAACCCCATTCG

Basic information

species Zea mays
transcript GRMZM2G341271_T02
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G341271_T02 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os10g41590.1 (Oryza sativa), 3'ss of exon 18
gtaacatataatgtactgtacgtgtttctcaatcatgattttagaggtttacaccattcttagctccaccacgaagttcctgtttctttgttggatgatcaattttgccgcctaaactgacgaggattgtatttttctgtatattcgttgacagGTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGAAACCTCGAGATTCGCCACCGAAAATGTCCTGGCTGTGGAACCCCATTCG
                                      | ||| | |      ||| |  |    || || |  |      |  | | ||||   |  ||  ||||  |  ||              |   | ||  | | | ||  ||| ||||| |||||||||||||| |||||| |||||||||||| ||| |||||||| ||||| ||||| |||||||| ||||| || || ||||| ||||| || |
--------------------------------------tcttacatgcgacagccaattctgttaccgccgctga----tggcatttctgttcctttctctcttttttcttctt------------cttcttcttcttcttttttttttggcagGTCGTGATCACCAAATGCTTCCACTTATTCTGCTCGCCATGTATCCAGAGGAACCTTGAGATCCGCCACCGCAAATGCCCAGGTTGTGGCACCCCCTTTG
















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|67022115|gb|CO450864.1|CO450864
EST:     AATGCAAGGGTATTCTCAAGTGTGGTGTATGCTTTGACCGGCCTAAAGAG                         GTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGA
genomic: AATGCAAGGGTATTCTCAAGTGTGGTGTATGCTTTGACCGGCCTAAAGAGgtaacatata ... tcgttgacagGTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGA
EST: gi|31364067|gb|CD448422.1|CD448422
EST:     AATGCAAGGGTATTCTCAAGTGTGGTGTATGCTTTGACCGGCCTAAAGAG                         GTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGA
genomic: AATGCAAGGGTATTCTCAAGTGTGGTGTATGCTTTGACCGGCCTAAAGAGgtaacatata ... tcgttgacagGTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGA
EST: gi|5688682|gb|AI941697.1|AI941697
EST:     AATGCAAGGGTATTCTCAAGTGTGGTGTATGCTTTGACCGGCCTAAAGAG                         GTTGTGATCACCAAATGTTTCCACCTATTCTGCTCTCTATGCATCCAGAGA
genomic: AATGCAAGGGTATTCTCAAGTGTGGTGTATGCTTTGACCGGCCTAAAGAGgtaacatata ... tcgttgacagGTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGA
EST: gi|31352135|gb|CD436492.1|CD436492
EST:     AATGCAAGGGTATTCTCAAGTGTGGTGTATGCTTTGACCGGCCTAAAGAG                         GTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGA
genomic: AATGCAAGGGTATTCTCAAGTGTGGTGTATGCTTTGACCGGCCTAAAGAGgtaacatata ... tcgttgacagGTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGA
EST: gi|60346497|gb|DN213470.1|DN213470
EST:     AATGCAAGGGTATTCTCAAGTGTGGTGTATGCTTTGACCGGCCTAAAGAG                         GTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGA
genomic: AATGCAAGGGTATTCTCAAGTGTGGTGTATGCTTTGACCGGCCTAAAGAGgtaacatata ... tcgttgacagGTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caattttgccgcctaaactgacgaggattgtatttttctgtatattcgttgacagGTTGTGATCACCAAATGTTTCCACCTATTCTGCTCGCTATGCATCCAGAGAAACCTCGAGATTCGCCACCGAAAATGTCCTGGCTGTGGAACCCCATTCG
               aactgac  putative branch site (score: 2)
                              tatttttctgtatatt  TA-rich tract