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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagatctgcatattgtttcatggatctgagtttgtgatataaactaattttatgactcatggaaggtcatgctcacttatattttacatgggttgctcacagGAACTTCCAAATCCTGTCTACCTTTTTCAAGGTATAGTTTTAAGAAGAGGTGCTAAAGGGACTGGCATGAAGTCCATAGAACTTGCCCTTTCCATGTGTG

Basic information

species Zea mays
transcript GRMZM2G119791_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G119791_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g36420.1 (Oryza sativa), 3'ss of exon 8
------------------------------------------------------------------------gtaagagatctgcatattgtttcatggatctgag---tttgtgatataaa--ctaattttatgactcatgga-----aggtcatgctcactta-tattttacatgggtt---gctcacagGAACTTCCAAATCCTGTCTACCTTTTTCAAGGTATAGTTTTAAGAAGAGGTGCTAAAGGGACTGGCATGAAGTCCATAGAACTTGCCCTTTCCATGTGTG
                                                                         | |   ||    || | |   |||| || | |     ||||||| |      |  |  ||||  |  |||      |  |||| | |||| | || ||  ||   |||    ||  |||||||||||||| || || || ||||||||||| ||||| || ||||||||||||||||||||||| |||||||| |||||| | ||||||||||||||||
gtaaaaggttatatgatcacatttttctttcgtccagctgagcatgttgtacaattcactatctgtctcttcttgaatcatactaatgt-gaagcatgaatttcatgctgttgtgattttcttcttgttactatggtttttggggactgaaatcattcacactgaatacttggcaattgttttaactggcagGAACTTCCAAACCCAGTTTATCTTTTTCAAGGCATAGTCTTGAGAAGAGGTGCTAAAGGGACTGGTATGAAGTCAATAGAATTGGCCCTTTCCATGTGTG

upper sequence: GRMZM2G119791_T03 (Zea mays), 3'ss of exon 6
lower sequence: Vv14s0068g01150.t01 (Vitis vinifera), 3'ss of exon 8
gtaagagatctgcatattgtttcatggatctgagtttgtgatataaactaattttatgactcatggaaggtcatgctcacttatattttacatgggttgctcacagGAACTTCCAAATCCTGTCTACCTTTTTCAAGGTATAGTTTTAAGAAGAGGTGCTAAAGGGACTGGCATGAAGTCCATAGAACTTGCCCTTTCCATGTGTG
  |     | | |||  || ||   |||| |   | | | |  | ||  | |   ||   || || || | |||| |       |||||   |    |  |  |||    ||| |||||| || || ||||| |||||||| ||  |  | |||||||| ||||| ||||| ||||| || |||||||| || |||||||||||||
-cattctcttttcattctgctt---ggatttttatgtcttaattgaaacagt--aatccttcttgcaatggcatgattttgatgatttttttttcacttatttcagAGTATTCAAAATCCAGTTTATCTTTTCCAAGGTATTGTGCTTCGCAGAGGTGCCAAAGGAACTGGAATGAAATCTATAGAACTAGCACTTTCCATGTGTG
















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|71423983|gb|DR806199.1|DR806199
EST:     CACTTATCATTAAAAGTTTGACGCACAAAGAAATCAATGCGGTGATAAAG                         GAACTTCCAAATCCTGTCTACCTTTTTCAAGGTATAGTTTTAAGAAGAGGT
genomic: CACTTATCATTAAAAGTTTGACGCACAAAGAAATCAATGCGGTGATAAAGgtaagagatc ... ttgctcacagGAACTTCCAAATCCTGTCTACCTTTTTCAAGGTATAGTTTTAAGAAGAGGT
EST: gi|71428024|gb|DR809074.1|DR809074
EST:     ACTTATCATTAAAAGTTTGACGCACAAAGAAATCAATGCGGTGATAAAAG                         GAACTTC-AAATCCTGTCTACCTTTTTTCA-GGTATAGTTTTAAGAAGAG
genomic: ACTTATCATTAAAAGTTTGACGCACAAAGAAATCAATGCGGTGATAAA-Ggtaagagatc ... ttgctcacagGAACTTCCAAATCCTGTCTACCTTTTT-CAAGGTATAGTTTTAAGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttatgactcatggaaggtcatgctcacttatattttacatgggttgctcacagGAACTTCCAAATCCTGTCTACCTTTTTCAAGGTATAGTTTTAAGAAGAGGTGCTAAAGGGACTGGCATGAAGTCCATAGAACTTGCCCTTTCCATGTGTG
                      tgctcac  putative branch site (score: 2)
                           acttatattttacat  TA-rich tract