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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttccataccaatgcaagtctgaacatcaatgctgtgaggtctggtcgatatcttgtcttactaatccttgtttgtagTCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGGTTGCACCTCGCGGGAGAGCATGAAAGCTGTGATGAAATTGTCCAGGCTT

Basic information

species Zea mays
transcript GRMZM2G063792_T02
intron # 6
splice site 3'
intron type U2

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|7145535|gb|AW507016.1|AW507016
EST:     ATGGAGAGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGA                         TCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
genomic: ATGGAGAGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGAgtatgttcca ... ttgtttgtagTCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
EST: gi|211114732|gb|FL311570.1|FL311570
EST:     ATGGAGAGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGA                         TCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
genomic: ATGGAGAGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGAgtatgttcca ... ttgtttgtagTCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
EST: gi|166420121|gb|EG323903.1|EG323903
EST:     AGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGA                         TCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
genomic: AGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGAgtatgttcca ... ttgtttgtagTCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
EST: gi|71446077|gb|DR827127.1|DR827127
EST:     ATGGAGAGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGA                         TCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
genomic: ATGGAGAGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGAgtatgttcca ... ttgtttgtagTCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
EST: gi|60398865|gb|DN231681.1|DN231681
EST:     ATGGAGAGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGA                         TCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
genomic: ATGGAGAGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGAgtatgttcca ... ttgtttgtagTCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
EST: gi|211367186|gb|FL433650.1|FL433650
EST:     ATGGAGAGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGA                         TCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG
genomic: ATGGAGAGAGTTCTTGGACCTTTGCCGTACCATATGCTTAAGAGGGCAGAgtatgttcca ... ttgtttgtagTCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatcaatgctgtgaggtctggtcgatatcttgtcttactaatccttgtttgtagTCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGGTTGCACCTCGCGGGAGAGCATGAAAGCTGTGATGAAATTGTCCAGGCTT
                                    tactaat  putative branch site (score: 1)
                                          tccttgttt  CT-rich tract
                                   ttactaat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttccataccaatgcaagtctgaacatcaatgctgtgaggtctggtcgatatcttgtcttactaatccttgtttgtagTCGGCACTCTGACAAATACATCAGAAAAGGACGCCTGAATTGGCCTGAGGGTTGCACCTCGCGGGAGAGCATGAAAGCTGTGATGAAATTGTCCAGGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG