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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtactatatgttgtaaccttttcatgcattgaccaataacttagcatttggaatgggtttctcatttttgtatcattatgtatttatgtgtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTTGATCGAGATTCATATGACTCTGGTGATTGGTTTAACAAGTATTACTCTA

Basic information

species Zea mays
transcript GRMZM2G158043_T03
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158043_T03 (Zea mays), 3'ss of exon 21
lower sequence: LOC_Os04g08270.1 (Oryza sativa), 3'ss of exon 12
-tgtactatatgttgtaaccttttcatgcattgaccaataacttagcatttggaatgggtttctcatttttgtatcattatgtatttatgtgtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTTGATCGAGATTCATATGACTCTGGTGATTGGTTTAACAAGTATTACTCTA
 |||  || |   |  || ||     |  | | |  |  ||       ||   |   | || |    ||||| ||  | ||     ||| ||  ||| ||||||||||| || || ||||||||||||||||||||  |||||||||| |||||||||||||||||| ||||||||||||||||||||||           
atgtgttacagtgttcaatctaaat-tatagttaaaagaaaaaggatgttaatagcagtttacattattttgaattttcatactcctatatgctctttcagGGAATACCTTTCTTCCATGCTGGTGATGAGATACTGAGATCTAAGTCACTTGATCGAGATTCATATAACTCTGGTGATTGGTTTAACAA-----------

upper sequence: GRMZM2G158043_T03 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA10G34080.1 (Glycine max), 3'ss of exon 22
tgtactatatgttgtaaccttttcatgcattgaccaataacttagcatttggaatgggtttctcatttttgtatc-attatgtattta-----tgtgtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTTGATCGAGATTCATATGACTCTGGTGATTGGTTTAACAAGTATTACTCTA
       |   |    |  |||| ||      ||  ||  |||||  | |   |     ||    ||  ||  || ||| ||    ||     | | |  |   |||| ||||||||||||||| |||| ||||||||||| || || || || || ||||||||||| ||  | |||||||||||||| ||||            
------ctgcttccctatattttaataaccaaactgattgcttagattataatagacaatttcttttagtgagtctattctggtgctaaagaatttctgttcttagGGTATACCATTTTTTCATTCTGGAGATGAGATACTCCGCTCAAAATCACTGGATCGAGATTCTTACAATTCTGGTGATTGGTTCAACAG-----------

upper sequence: GRMZM2G158043_T03 (Zea mays), 3'ss of exon 21
lower sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 22
------------------------------------tgtactatatg-ttgtaacct-----tttcatgcattgaccaataacttagcatttggaatgggtttctcatttttgtatcattatgtatttatgtgtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTTGATCGAGATTCATATGACTCTGGTGATTGGTTTAACAAGTATTACTCTA
                                    |  ||||   |  || || ||     |     ||| |   |   ||  ||  |     | | | |||||  ||    | | | ||||| ||  | || |  |  |||| || ||||| || |||||||| |||||||| ||||| || || || |||||||||||||| ||  |||| ||||| ||||| || |            
gttctctactgtattccaacttaacttagttatatgtagactaagggactgcaaactacggctagtgggcactattctcgaatctattacaccaagtagatttct-gttcaaatcttaatatgttttattctgcatgtaaagGGTATTCCATTCTTCCATGCTGGGGATGAGATTCTACGCTCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAG-----------

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|18648749|gb|BM497568.1|BM497568
EST:     AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAG                         GGAATACCATTTTTTCATGCTG
genomic: AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAGgtgcttatga ... gtacttccagGGAATACCATTTTTTCATGCTG
EST: gi|18450794|gb|BM429072.1|BM429072
EST:     AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAG                         GGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGC
genomic: AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAGgtgcttatga ... gtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGC
EST: gi|87152540|gb|DY397329.1|DY397329
EST:     AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAG                         GGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGC
genomic: AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAGgtgcttatga ... gtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGC
EST: gi|18648748|gb|BM497567.1|BM497567
EST:     AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAG                         GGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGC
genomic: AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAGgtgcttatga ... gtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGC
EST: gi|60396203|gb|DN229072.1|DN229072
EST:     AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAG                         GGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTT
genomic: AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAGgtgcttatga ... gtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTT
EST: gi|31360398|gb|CD444755.1|CD444755
EST:     AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAG                         GGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTT
genomic: AGCGATGCAGGATAAATCATTTGTCCACAAGCATGATTGCATTATCCCAGgtgcttatga ... gtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttggaatgggtttctcatttttgtatcattatgtatttatgtgtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTTGATCGAGATTCATATGACTCTGGTGATTGGTTTAACAAGTATTACTCTA
                                              tacttcc  CT-rich tract
                   atttttgtatcattat  TA-rich tract