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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACCAAACAATGGAGAGCCAATCGCAATCAGCAACCTAAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacaccacccaacttttgctctacattttctccatgttacccacaacttattcatggcttgatgcatttctaatgtgcaatattgaatacatgac...

Basic information

species Zea mays
transcript GRMZM2G044317_T06
intron # 3
splice site 5'
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|32164923|gb|CD670241.1|CD670241
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAG                         CAGGTAAGCNCTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|211298656|gb|FL153827.1|FL153827
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|5740179|gb|AI947869.1|AI947869
EST:     GAAACTATCCATTTCCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: GAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|60351451|gb|DN218424.1|DN218424
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|18383633|gb|BM416833.1|BM416833
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|32164924|gb|CD670242.1|CD670242
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|74238130|gb|DT646044.1|DT646044
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|60354600|gb|DN221573.1|DN221573
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|78021198|gb|DV489585.1|DV489585
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|32832353|gb|CD972031.1|CD972031
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTTCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCTTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|32833600|gb|CD973278.1|CD973278
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTTCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCTTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|32834800|gb|CD974478.1|CD974478
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTTCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCTTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|78088857|gb|DV517250.1|DV517250
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|211096944|gb|FL476439.1|FL476439
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTA-C--                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
EST: gi|211220328|gb|FL435582.1|FL435582
EST:     AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAG                         CAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC
genomic: AAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacac ... ggtcaaacagCAGGTAAGCACTGAAGCAAAATTCATCCTTGATGCCAATTATGTTATCGTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACCAAACAATGGAGAGCCAATCGCAATCAGCAACCTAAATTGTGTCAGCAGCTGGAGAAACTATACATTTCCAAAAAACTTACCAGgtcttgacaccacccaacttttgctctacattttctccatgttacccacaacttattcatggcttgatgcatttctaatgtgcaatattgaatacatgac

- - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA