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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCCTAGTTCAGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttcaagcacaaatctaactggaatcaagagatactaatatagtaattcttcacatgatgtcatcagcactttgttctaataatactactacatc...

Basic information

species Zea mays
transcript GRMZM2G089259_T01
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G089259_T01 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os11g07912.1 (Oryza sativa), 5'ss of exon 14
GCTCCTAGTTCAGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttcaagcacaaatctaactggaatca-agagatactaatatagtaattcttcacatgatgtcatcagcactttgttctaataatactacta-catc
| | ||||||||||| ||||||||||||| |||| |||| || ||||| || ||| |||||||| |||      |   | | |||     ||| |||    ||    || |   ||   || |  |   |  |     |||  |  |      ||  | ||||
GATTCTAGTTCAGTTCTGGTGCAGCTACAACACATTGCCACTTAATGTAATCATTACTCAGgtattct--ggttattgaaccaacacatctcagagaatcccttgcctaatttctcagaactttttactactaatttcttgaacggaagggggtaaaatcatc
















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|4730384|gb|AI649550.1|AI649550
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|60401508|gb|DN234315.1|DN234315
EST:     GTTTTGGTGC-GCTACAGCACACTGGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: GTTTTGGTGCAGCTACAGCACACT-GCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|71428022|gb|DR809072.1|DR809072
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|60338197|gb|DN205170.1|DN205170
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|76012906|gb|DT940076.1|DT940076
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|50336815|gb|CO531941.1|CO531941
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|28987033|gb|CB351431.1|CB351431
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|148994787|gb|EE034232.2|EE034232
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|60395967|gb|DN228837.1|DN228837
EST:     GTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: GTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|71329463|gb|DR801452.1|DR801452
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|29129794|gb|CB380498.1|CB380498
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|71321199|gb|DR797301.1|DR797301
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
EST: gi|50337270|gb|CO532396.1|CO532396
EST:     AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAG                         ATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG
genomic: AGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttca ... tgatcttcagATGGGTTCCAAGTTCAAGAAATCACTGGTCTCGGAGAACGTGAGGGAGTCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCCTAGTTCAGTTTTGGTGCAGCTACAGCACACTGCCGCTGAATGTGATTATTTCTCAGgtactcttcaagcacaaatctaactggaatcaagagatactaatatagtaattcttcacatgatgtcatcagcactttgttctaataatactactacatc

- - - - - - - - - - GCAGCT