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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtctatggatatattattattattattatatttttatcgtattcattttcttactgaaaatgtgtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGTCGTCAAGATCCAAGAGGAGCTTGACATTGATGTGCTTGTGCATGGAGAG

Basic information

species Zea mays
transcript GRMZM2G112149_T03
intron # 9
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|32928418|gb|CF033230.1|CF033230
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
EST: gi|32928320|gb|CF033132.1|CF033132
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
EST: gi|32909873|gb|CF014685.1|CF014685
EST:     CCTCAGACNGTGGTACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAG
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAG
EST: gi|32830685|gb|CD970363.1|CD970363
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGT
EST: gi|33102730|gb|CF062690.1|CF062690
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGGGAGAAATCAGCAAGGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
EST: gi|32846614|gb|CD986295.1|CD986295
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
EST: gi|21885252|gb|BQ740245.1|BQ740245
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         AATCACCGAGGACGAATACATCAATGCCATCAAGGAAGAAATCAGCAAGGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
EST: gi|211333690|gb|FL127548.1|FL127548
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
EST: gi|33101594|gb|CF061554.1|CF061554
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
EST: gi|32850033|gb|CD989714.1|CD989714
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGG
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGG
EST: gi|32831682|gb|CD971360.1|CD971360
EST:     CCTCAGACGGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
EST: gi|32831227|gb|CD970905.1|CD970905
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
EST: gi|32850228|gb|CD989909.1|CD989909
EST:     CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAA                         GATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT
genomic: CCTCAGACTGTGGAACTCAGGAGGGTTCGCCGTGAATACAAGGCAAAGAAgtaagtgtct ... gtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attattattatatttttatcgtattcattttcttactgaaaatgtgtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGTCGTCAAGATCCAAGAGGAGCTTGACATTGATGTGCTTGTGCATGGAGAG
                             ttcttac  putative branch site (score: 2)
     tattatatttttatcg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgtctatggatatattattattattattatatttttatcgtattcattttcttactgaaaatgtgtcattgcagGATCACCGAGGACGAATACATCAGTGCCATCAAGGAAGAAATCAGCAAGGTCGTCAAGATCCAAGAGGAGCTTGACATTGATGTGCTTGTGCATGGAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA