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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctagggattgcatgcaatgaagtgcccagtttcagttcactcgacttgctcttgtgcacctgtaattacttaagcctgccattcgttctttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTTACTGAAAGTAGACTGGAGGAACTGATGGATAAGTTTCTAGAGGATTTTA

Basic information

species Zea mays
transcript GRMZM2G168953_T03
intron # 3
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|37380890|gb|CF627288.1|CF627288
EST:     CCTCCTCTGGAAGAATNGTCAACGTATCGTCAGGCTTTGGACTACTGAGA                         AATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
genomic: CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGAgtaagttttg ... ttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
EST: gi|28982709|gb|BQ538258.2|BQ538258
EST:     CAACGTTTCGTCAGGCTTTGGACTACTGAGA                         AATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
genomic: CAACGTTTCGTCAGGCTTTGGACTACTGAGAgtaagttttg ... ttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
EST: gi|60348997|gb|DN215970.1|DN215970
EST:     CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGA                         AATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
genomic: CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGAgtaagttttg ... ttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
EST: gi|71758310|gb|DR956247.1|DR956247
EST:     CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGA                         AATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
genomic: CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGAgtaagttttg ... ttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
EST: gi|78109251|gb|DV527667.1|DV527667
EST:     CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGA                         AATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
genomic: CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGAgtaagttttg ... ttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
EST: gi|86473366|gb|DY239736.1|DY239736
EST:     CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGA                         AATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
genomic: CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGAgtaagttttg ... ttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
EST: gi|71757845|gb|DR955782.1|DR955782
EST:     CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGA                         AATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
genomic: CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGAgtaagttttg ... ttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
EST: gi|78123768|gb|DV542152.1|DV542152
EST:     CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGA                         AATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT
genomic: CCTCCTCTGGAAGAATTGTCAACGTTTCGTCAGGCTTTGGACTACTGAGAgtaagttttg ... ttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgctcttgtgcacctgtaattacttaagcctgccattcgttctttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTTACTGAAAGTAGACTGGAGGAACTGATGGATAAGTTTCTAGAGGATTTTA
                                  ccattcgttctttct  CT-rich tract
                  taattacttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctagggattgcatgcaatgaagtgcccagtttcagttcactcgacttgctcttgtgcacctgtaattacttaagcctgccattcgttctttctgagcagAATTTCAACAGCGAAGACCTTAGGAAGGAGTTTGAAGACATCGACAATCTTACTGAAAGTAGACTGGAGGAACTGATGGATAAGTTTCTAGAGGATTTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT