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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgtaataatctagttttgacattaacatatttatgaatttcaaagtgaagcaatgaatcacatcattcatgcgctaataacgacttcttttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGCCAACAGCAGTTAAGGGCGGTGAACCTTTGCCTGAGGGTCTCCTTTGGCTTC

Basic information

species Zea mays
transcript GRMZM2G063851_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063851_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g33240.3 (Oryza sativa), 3'ss of exon 5
atgtaataatctagttttgacattaacata-tttatgaatttcaaa-gtgaagcaatgaatcacatcattcatgcgctaataacgacttcttttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGCCAACAGCAGTTAAGGGCGGTGAACCTTTGCCTGAGGGTCTCCTTTGGCTTC
 | |     |  |||| | || |      | ||| |||| || ||| ||| | || |  ||    |   |  ||     | | |    ||||||||||||||||||||||||| ||||| ||||| |||||||| ||||| |||||||||||||||||| |||| || || ||||||||||| |||||||||||||||||||
-ttttgagttagagttgtaacttagttggaatttgtgaaatttaaacgtgtatcactccat-gttttgctgttggatgtaaatctctctcttttctatccagGGTATTCGTTTCAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCAACAGCAATTAAAGGTGGAGAACCTTTGCCGGAGGGTCTCCTTTGGCTTC

upper sequence: GRMZM2G063851_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 3'ss of exon 6
atgtaataatctag-ttttgacattaacata--tttatgaatttcaaa-gtgaagcaatgaatcacat-cattcatgcgctaataacgacttcttttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGCCAACAGCAGTTAAGGGCGGTGAACCTTTGCCTGAGGGTCTCCTTTGGCTTC
      |||  ||| |||| |  |||   |   ||| |||| || ||| ||| | || |  ||  | | |  |     |  | |    || ||||| ||||||||||||||||||||||||| ||||| |||||||| ||||| ||||||||||| ||||||||||| |  || || ||||||||||||||||| ||||||||||
-----ttaagttagatttttagcttagtttgactttgtgaaatttaaacgtgcatcactctatatcttgctgttggatgtaagtctgtacctctttcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCGACAGCAGTTAAAGATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTC
















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|211507876|gb|FL228171.1|FL228171
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTG
EST: gi|211059244|gb|FL131321.1|FL131321
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGCCA
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGCCA
EST: gi|93284646|gb|EB676910.1|EB676910
EST:     AGGGATGACTGGAATGCTTTTGGAAACATCCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGCCTC
genomic: AGGGATGACTGGAATGCTTTGGGAAACATCCC-TACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTC
EST: gi|211510249|gb|FL228196.1|FL228196
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGCCTCTCAAT
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTCTCAAT
EST: gi|148974563|gb|EE025351.2|EE025351
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGCCA
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGCCA
EST: gi|211510246|gb|FL228193.1|FL228193
EST:     AGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCCAGAGGAG                         GGTATTCGTTTTAGGGG
genomic: AGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCC-AGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGG
EST: gi|211507880|gb|FL228175.1|FL228175
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCC
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCC
EST: gi|211507878|gb|FL228173.1|FL228173
EST:     GGGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAA
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAA
EST: gi|211510237|gb|FL228184.1|FL228184
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGC-AAAAAGTGCTGCCA
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGCCA
EST: gi|211507873|gb|FL228168.1|FL228168
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGCCTCTTCA-TTCCAGAATGCCAAAAAGTGCTGCC
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTCT-CAATTCCAGAATGCCAAAAAGTGCTGCC
EST: gi|211507875|gb|FL228170.1|FL228170
EST:     GAGGGATGACTGGAATGCTTTNGGAAACATCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGC-TCTCAATTCCAGAAT
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAAT
EST: gi|211505527|gb|FL228166.1|FL228166
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAG                         GGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGC
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgc ... ttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaagcaatgaatcacatcattcatgcgctaataacgacttcttttctatccagGGTATTCGTTTTAGGGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGCCAACAGCAGTTAAGGGCGGTGAACCTTTGCCTGAGGGTCTCCTTTGGCTTC
                              taataac  putative branch site (score: 1)
                                       cttcttttctatcc  putative PPT
                                           ttttctat  TA-rich tract