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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCCATGCCTCCACCGCCTGCATATGAAGAAGTCAATGGTATATTCATGAGAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtttcgtcacattgcacaagttcgtagctgccaggcgctagctcttgatttttacccatataataatctacatatttgttgtcatttttcttcggtag

Basic information

species Zea mays
transcript GRMZM2G002859_T02
intron # 8
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|71307047|gb|DR789678.1|DR789678
EST:     GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|166412609|gb|EG270091.1|EG270091
EST:     TATTTC-TGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: TATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|149070323|gb|EE158722.2|EE158722
EST:     GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|33091909|gb|CF051903.1|CF051903
EST:     GAAATACAGTTGCAGAATTGGTCGAGGCTGTGGAGTATTTCTTGGCTGAG                         ACAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|148986436|gb|EE030178.2|EE030178
EST:     GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTTTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|40336986|gb|CK371056.1|CK371056
EST:     GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|40335185|gb|CK369255.1|CK369255
EST:     GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|101396723|gb|EB820287.1|EB820287
EST:     AATACAGTTGCAGAATTGGTGGAGACTGTGGGAGTTATTTCTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: AATACAGTTGCAGAATTGGTCGAGACTGT-GGAG-TATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|60356623|gb|DN223596.1|DN223596
EST:     GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|211534621|gb|FL443302.1|FL443302
EST:     GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|37385184|gb|CF629716.1|CF629716
EST:     GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|37380473|gb|CF627052.1|CF627052
EST:     GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
EST: gi|38687511|gb|CK144542.1|CK144542
EST:     GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAG                         GCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT
genomic: GAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtt ... tcttcggtagGCAATCCAGTCATACCAAGCCGAAAGCGATACCGAGCTCAACCTTTCAACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCCATGCCTCCACCGCCTGCATATGAAGAAGTCAATGGTATATTCATGAGAAATACAGTTGCAGAATTGGTCGAGACTGTGGAGTATTTCTTGGCTGAGgtaacttgtttcgtcacattgcacaagttcgtagctgccaggcgctagctcttgatttttacccatataataatctacatatttgttgtcatttttcttcggtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG