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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtgcgtgctcaaaacttaattctgtgatcttaataatgtgttaactatatgggataggtatactgaaaattcctgtactgtttgagtaatcgtttttttctgcccccgttgtccacctctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCCAACTCAACGTTGGGCAGATGGCGCAGATCCCCAATCTTGACAACGCGCC

Basic information

species Zea mays
transcript GRMZM2G003734_T01
intron # 1
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|71440284|gb|DR821334.1|DR821334
EST:     ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTG                         GCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
genomic: ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTGgttcgtgcgt ... ctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
EST: gi|76292771|gb|DV032339.1|DV032339
EST:     ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTG                         GCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
genomic: ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTGgttcgtgcgt ... ctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
EST: gi|71773077|gb|DR970995.1|DR970995
EST:     ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTG                         GCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
genomic: ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTGgttcgtgcgt ... ctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
EST: gi|148972311|gb|EE023217.2|EE023217
EST:     ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTG                         GCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
genomic: ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTGgttcgtgcgt ... ctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
EST: gi|91049806|gb|EB160224.1|EB160224
EST:     ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTG                         GCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
genomic: ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTGgttcgtgcgt ... ctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
EST: gi|148936035|gb|EC880094.2|EC880094
EST:     ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTG                         GCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
genomic: ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTGgttcgtgcgt ... ctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
EST: gi|148963504|gb|EE014525.2|EE014525
EST:     ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTG                         GCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
genomic: ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTGgttcgtgcgt ... ctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
EST: gi|149078313|gb|EE167079.2|EE167079
EST:     ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTG                         GCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC
genomic: ATCAGCCTGAGGCATCGCACGATTTCTGACTCATACTTTATCGCCAATTGgttcgtgcgt ... ctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtactgtttgagtaatcgtttttttctgcccccgttgtccacctctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCCAACTCAACGTTGGGCAGATGGCGCAGATCCCCAATCTTGACAACGCGCC
                   tttttttctgcccccg  CT-rich tract
                   tttttttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgtgcgtgctcaaaacttaattctgtgatcttaataatgtgttaactatatgggataggtatactgaaaattcctgtactgtttgagtaatcgtttttttctgcccccgttgtccacctctctgtctagGCTGGGGTGGAGCACATCTCTACCCGGACTTGATAGATTCCAATCCTTCCCAACTCAACGTTGGGCAGATGGCGCAGATCCCCAATCTTGACAACGCGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT