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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCTTCCGTGACTATGGAGAATCCGTCTTGAGACATTTAGAGAATGCAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacatattctttgctttgttctttcgaaacttgaatatagatcttgatgcataatttttcttctgcgagaaagctggatttctgcttattttatggcataccatacacag

Basic information

species Zea mays
transcript GRMZM2G069676_T02
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069676_T03 (Zea mays), 5'ss of exon 16
lower sequence: LOC_Os07g26610.1 (Oryza sativa), 5'ss of exon 16
GTCCTTCCGTGACTATGGAGAATCCGTCTTGAGACATTTAGAGAATGCAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacatattctttgctttgttctttcgaaacttgaatatagatcttgatgcat--aatttttcttctgcgagaaagctggatttctgcttatt-ttatggcataccatacacag---------
|||||||||||| || |||||| | ||||||| |||||| |||||||||||||| |||||   | ||||  | ||||| |||  |||| |||| |||||||||   |||||||||||| ||| |  | ||  |||| |||| ||||||||  ||  |  |||||||  |  |   ||||||  ||   ||||||  | |  ||| | |||              
GTCCTTCCGTGATTACGGAGAAGCTGTCTTGAAACATTTGGAGAATGCAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGCgtatgtcattattctttgctt-gttttcac-aagtttgagtatatatcttgatatatctaccttttcttgggtaaagtagctgggcttt--cttattgctgtatcatgctatatttttactacgcag
















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|211441849|gb|FL182586.1|FL182586
EST:     CAAAGACCCAAATCTCCATAAAGCCCCGGTGAACCATGAGGGC                         GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
genomic: CAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacat ... ccatacacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
EST: gi|76289293|gb|DV028861.1|DV028861
EST:     CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGC                         GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
genomic: CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacat ... ccatacacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
EST: gi|78112841|gb|DV531235.1|DV531235
EST:     CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGC                         GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
genomic: CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacat ... ccatacacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
EST: gi|86465999|gb|DY232372.1|DY232372
EST:     CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGC                         GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
genomic: CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacat ... ccatacacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
EST: gi|101389186|gb|EB816548.1|EB816548
EST:     CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGC                         GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
genomic: CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacat ... ccatacacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
EST: gi|67018791|gb|CO447540.1|CO447540
EST:     CCAAATCTTCGTAAAGCCCCGTTGAACC-TGAGGGC                         GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
genomic: CCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacat ... ccatacacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
EST: gi|20512826|gb|BQ280024.1|BQ280024
EST:     CAATCAGCAAAGACCCAAATCTCCATAAAGCCCCGGTGAACCATGAGGGC                         GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
genomic: CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacat ... ccatacacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
EST: gi|32928442|gb|CF033254.1|CF033254
EST:     CAATCAGCAAAGACCCAAATCTCCATAAAGCCCCGGTGAACCATGAGGGC                         GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
genomic: CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacat ... ccatacacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
EST: gi|32928208|gb|CF033020.1|CF033020
EST:     CAATCAGCAAAGACCCAAATCTCCATAAAGCCCCGGTGAACCATGAGGGC                         GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
genomic: CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacat ... ccatacacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
EST: gi|32929540|gb|CF034352.1|CF034352
EST:     CAATCAGCAAAGACCCAAATCTCCATAAAGCCCCGGTGAACCATGAGGGC                         GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT
genomic: CAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacat ... ccatacacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCAT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCCTTCCGTGACTATGGAGAATCCGTCTTGAGACATTTAGAGAATGCAATCAGCAAAGACCCAAATCTCCGTAAAGCCCCGGTGAACCATGAGGGCgtatgtacatattctttgctttgttctttcgaaacttgaatatagatcttgatgcataatttttcttctgcgagaaagctggatttctgcttattttatggcataccatacacag

- - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG