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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagttcgccgggtggttactggttgtctgtgccatggtgttgccgtgttggtcgagggtggtttgacatttgtgttgtttggttgtagGAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGGTCACGGACACGGTGGAACACAGTGATGGGGTCCAGAAGTGCATCAGGGTGCGGTTCGGGT

Basic information

species Zea mays
transcript GRMZM2G173137_T01
intron # 2
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|211270950|gb|FL142984.1|FL142984
EST:     ATGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGTTCG                         GAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGGTCACGGACACG
genomic: ATGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGTTCGgtcagttcgc ... ttggttgtagGAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGGTCACGGACACG
EST: gi|101396092|gb|EB819973.1|EB819973
EST:     ATGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGTTCG                         GAGGTGCATAACTTCTTTAAGAAGACCCTTCAAGTTCCTGGTCACGGACAC
genomic: ATGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGTTCGgtcagttcgc ... ttggttgtagGAGGTGCATAACTTCTTTAAGAAGACC-TTCAAGTTCCTGGTCACGGACAC
EST: gi|211270949|gb|FL142983.1|FL142983
EST:     ATGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGTTCG                         GAGGTGCATAACT
genomic: ATGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGTTCGgtcagttcgc ... ttggttgtagGAGGTGCATAACT
EST: gi|93283509|gb|EB675773.1|EB675773
EST:     ATGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGTTCG                         GAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGGTCACGGACACG
genomic: ATGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGTTCGgtcagttcgc ... ttggttgtagGAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGGTCACGGACACG
EST: gi|211270951|gb|FL142985.1|FL142985
EST:     TGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGNNTCG                         GAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGGTCACGGACAC
genomic: TGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGT-TCGgtcagttcgc ... ttggttgtagGAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGGTCACGGACAC
EST: gi|19057910|gb|BM736577.1|BM736577
EST:     ATGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGTTCG                         GAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGG
genomic: ATGTCTCGCCTGTCATTCTATCGCCTGATGCCGACAAAGCACACCGTTCGgtcagttcgc ... ttggttgtagGAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggtgttgccgtgttggtcgagggtggtttgacatttgtgttgtttggttgtagGAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGGTCACGGACACGGTGGAACACAGTGATGGGGTCCAGAAGTGCATCAGGGTGCGGTTCGGGT
                           gtttgac  putative branch site (score: 4)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagttcgccgggtggttactggttgtctgtgccatggtgttgccgtgttggtcgagggtggtttgacatttgtgttgtttggttgtagGAGGTGCATAACTTCTTTAAGAAGACCTTCAAGTTCCTGGTCACGGACACGGTGGAACACAGTGATGGGGTCCAGAAGTGCATCAGGGTGCGGTTCGGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT