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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattgttttcagatttgttaaatcttttatcaacacggggcttctaaactgatggaatttctctcttataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAAAG

Basic information

species Zea mays
transcript GRMZM2G006130_T05
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006130_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os12g03470.5 (Oryza sativa), 3'ss of exon 9
gtaattgttttcagatttgttaaatctt--ttatcaacacggggcttctaaactgatggaatttctctcttataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAAAG
|||||  ||  || |||| ||| |||||  |   ||   | |  || || || || |   |   |||| |||||  |||||||| ||||| |||||||||||||||||||  || ||||| ||||||||||| 
gtaataattgccatattttttatatctttatcgccacagctgacctccttaattgctactaaa-ctcttttatatatcagGAATCAGCCATAATGATGAAGTTGATACTGCTGCAATTGCTCCTTTTGTAAAA

upper sequence: GRMZM2G006130_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os11g03730.2 (Oryza sativa), 3'ss of exon 9
gtaattgttttcagatttgttaaatctt--ttatcaacacggggcttctaaactgatggaatttctctcttataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAAAG
|||||  ||  || |||| ||| |||||  | | ||   | |  || || ||  ||    |      |   |||  |||||||| ||||| |||||||||||||||||||  || ||||| ||||||||||| 
gtaataattgccatattttttatatcttgatcaccacagctgacctcctgaatcgacactaaactctttaaata--tcagGAATCAGCCATAATGATGAAGTTGATACTGCTGCGATTGCTCCTTTTGTAAAA
















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|32924623|gb|CF029435.1|CF029435
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|32929966|gb|CF034778.1|CF034778
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|32929408|gb|CF034220.1|CF034220
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|18963147|gb|BM660266.1|BM660266
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGACACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|32923839|gb|CF028651.1|CF028651
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|21331549|gb|BQ486930.1|BQ486930
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGTCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|32924017|gb|CF028829.1|CF028829
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|32924183|gb|CF028995.1|CF028995
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|32928349|gb|CF033161.1|CF033161
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTCGATACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|32924613|gb|CF029425.1|CF029425
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|18654845|gb|BM499650.1|BM499650
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGACACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|32924051|gb|CF028863.1|CF028863
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA
EST: gi|18661865|gb|BM501621.1|BM501621
EST:     CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG                         GAATAAGCCACAATGATGAAGTTGACACTGTAGCTATTGCCCCTTTTGTAA
genomic: CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttt ... tataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttttatcaacacggggcttctaaactgatggaatttctctcttataactcagGAATAAGCCACAATGATGAAGTTGATACTGTAGCTATTGCCCCTTTTGTAAAG
                                            ttataac  putative branch site (score: 2)
                                    tttctctcttat  CT-rich tract
                                          tcttataa  TA-rich tract