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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaactttcatgttcatctgcttatgggacaaataagttcttacgaactagaagattcttgcaaaacatgatcgtgaaaccattacctgtacttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCATGTATTTGTCTTCTCCATTGTGGATGGCCATGTTTGGTTTCGAAACTACC

Basic information

species Zea mays
transcript GRMZM2G168176_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G168176_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g37870.1 (Oryza sativa), 3'ss of exon 4
--tgaactttcatgtt-catctgcttatgggacaaataagttcttacgaactagaagattcttgcaaaacatgatcgtgaaaccattacctgtacttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCATGTATTTGTCTTCTCCATTGTGGATGGCCATGTTTGGTTTCGAAACTACC
  |      | | |||  |  ||||| |     |   |||   ||  |||  | |     | |  ||||||| |      ||| ||||  ||  ||   |||||||||||||||||| |||||||| || || ||||| ||||| ||||||||||| ||||||||||| || || |||| ||||||||||||| |||| || |
aatccgtgatgaagttatacatgcttcttttctagtaaagcagttgagaaacaaacttgccctaaaaaacataagaaactaactattatttgctct---gcagATATTTGCTACTCCAAAAGATCATCGAAAGGCAAAGCCTTTTCATGACCATGTGTTTGTCTTCTCTATCGTTGATGACCATGTTTGGTTTAGAAATTATC

upper sequence: GRMZM2G168176_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT3G15460.1 (Arabidopsis thaliana), 3'ss of exon 4
tgaactttcatgttcatctgcttatgggaca-aataagttcttacgaactagaagattcttgcaaaacatgatcgtgaaaccattacctgtacttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCATGTATTTGTCTTCTCCATTGTGGATGGCCATGTTTGGTTTCGAAACTACC
     | ||||  |||  |    || |   |  ||   ||  ||    |    || ||  |  | | | | | | |  ||   ||   | |     | ||||| ||||  | |||  | |  ||  | ||  | ||||||| |||||||||||| ||||| ||||||||||| |||| |||| | ||||| || || ||||
----gtctcattctcacttttgaattgtggacgatccttttgtagtcgcggttagtttggtttatatcttcaacttttaagttttgtttttttgcttacagATTTTTGGAATTCCCGAGGGACATAGGAAGTCTAAACCTTACCATGACCATGTGTTTGTTTTCTCCATTGTTGATGACCATATATGGTTCCGTAATTACC
















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|101388447|gb|EB816210.1|EB816210
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
EST: gi|148943696|gb|EC888763.2|EC888763
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
EST: gi|76289778|gb|DV029346.1|DV029346
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
EST: gi|76285403|gb|DV024971.1|DV024971
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAAACTTTCCATGACCAT
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
EST: gi|71325419|gb|DR799392.1|DR799392
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
EST: gi|71307148|gb|DR789745.1|DR789745
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCCTTTCCATGACCA
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACC-TTTCCATGACCA
EST: gi|6827088|gb|AW330731.1|AW330731
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGCAAAGCAAAACCTTTCCATGACCAT
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
EST: gi|76283913|gb|DV023481.1|DV023481
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTTCATGACCAT
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
EST: gi|78180563|gb|DV550891.1|DV550891
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
EST: gi|32945542|gb|CF050361.1|CF050361
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
EST: gi|18659405|gb|BM500320.1|BM500320
EST:     ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCAT                         ATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
genomic: ATTTTGATGAGCAACCTCATTGGAAGCTTGTGAAGGAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT
EST: gi|14203242|gb|BG836919.1|BG836919
EST:     GAAATTATAACTCAT                         ATATTTGCTACTCCTAAARATCACCGTAAAGCAAAACCTTTCCATGACCAT
genomic: GAAATTATAACTCATgtatgtaatt ... acttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactagaagattcttgcaaaacatgatcgtgaaaccattacctgtacttgtgcagATATTTGCTACTCCTAAAGATCACCGTAAAGCAAAACCTTTCCATGACCATGTATTTGTCTTCTCCATTGTGGATGGCCATGTTTGGTTTCGAAACTACC
                 aaaacat  TA-rich tract