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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggctatgcagagctttgcttgcgttccatctctactgtattctgttttcccatgcgggtttttttaacactgaacgcttctcctattctgatcctccagTTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAAGTCAGTTTTCCAGAGGATCAG

Basic information

species Zea mays
transcript GRMZM2G003565_T02
intron # 7
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|29130842|gb|CB381546.1|CB381546
EST:     CGATGGCACTTACATCAGAGGGAAAGCTTTACGGATGGGGATGGAACAAG                         TTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
genomic: CGATGGCACTTACATCAGAGGGAAAGCTTTACGGATGGGGATGGAACAAGgtcgttatca ... gatcctccagTTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
EST: gi|211087172|gb|FL255715.1|FL255715
EST:     CGATGGCACTTACATCAGAGGGAAAGCTTTACGGATGGGGATGGAACAAG                         TTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
genomic: CGATGGCACTTACATCAGAGGGAAAGCTTTACGGATGGGGATGGAACAAGgtcgttatca ... gatcctccagTTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
EST: gi|194716840|gb|FK933999.1|FK933999
EST:     CGATGGCACTTACATCAGAGGGAGAGCTTTACGGATGGGGATGGAACAAG                         TTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
genomic: CGATGGCACTTACATCAGAGGGAAAGCTTTACGGATGGGGATGGAACAAGgtcgttatca ... gatcctccagTTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
EST: gi|60342864|gb|DN209837.1|DN209837
EST:     GGGAAAGCTTTACGGATGGGGATGGAACAAG                         TTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
genomic: GGGAAAGCTTTACGGATGGGGATGGAACAAGgtcgttatca ... gatcctccagTTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
EST: gi|211471127|gb|FL255671.1|FL255671
EST:     CGATGGCACTTACATCAGAGGGAAAGCTTTACGGATGGGGATGGAACAAG                         TTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
genomic: CGATGGCACTTACATCAGAGGGAAAGCTTTACGGATGGGGATGGAACAAGgtcgttatca ... gatcctccagTTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
EST: gi|211476174|gb|FL255694.1|FL255694
EST:     CGATGGCACTTACATCAGAGGGAAAGCTTTACGGATGGGGATGGAACAAG                         TTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
genomic: CGATGGCACTTACATCAGAGGGAAAGCTTTACGGATGGGGATGGAACAAGgtcgttatca ... gatcctccagTTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
EST: gi|60339276|gb|DN206249.1|DN206249
EST:     GGGAAAGCTTTACGGATGGGGATGGAACAAG                         TTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA
genomic: GGGAAAGCTTTACGGATGGGGATGGAACAAGgtcgttatca ... gatcctccagTTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcccatgcgggtttttttaacactgaacgcttctcctattctgatcctccagTTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAAGTCAGTTTTCCAGAGGATCAG
                                cttctcctattctgat  CT-rich tract
              tttttttaaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggctatgcagagctttgcttgcgttccatctctactgtattctgttttcccatgcgggtttttttaacactgaacgcttctcctattctgatcctccagTTCGGACAAGTCGGAGTCGGCAACAACGACGACCACAGCTCCCCCGGACAAGTCAGTTTTCCAGAGGATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- -ctatgca
- - - - - - - - tgcttgc
- - - - - - - - - - - - - - - -tctactg
- - - - - - - - - - - - - - - - - - - - -tctgttt
- - - - - - - - - - - - - - - - - - - - - - - - -cccatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactgaa