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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGACCGCTAGCAAGTATCTCAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattcagcttctttattgcaaattcgagtggaggctaacaatctttaatttattatggtgtttatttatctttgcacctgttcaaaacatctggt...

Basic information

species Zea mays
transcript GRMZM2G044237_T03
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044237_T03 (Zea mays), 5'ss of exon 15
lower sequence: LOC_Os03g17120.1 (Oryza sativa), 5'ss of exon 15
ATTGACCGCTAGCAAGTATCTCAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattcagcttctttattgca-aattcgagtggaggctaacaatctttaatttattatggtgtttatttatctttgcacctgttcaaaacatctggt-----
||   | || ||||||||||| ||||||||||||||   |||||||||||| ||||||||| |||||||||||||||||||| |||     ||||| || |||| |    | |  |     | ||| | |  |  ||||  | | ||         ||     || ||||||     
ATCTGCGGCCAGCAAGTATCTGAAAGATGCTGGAGACATCCATGGTACAGTGAACATTGATGTATCAGTTGgtaagcattcaactt----gttgcataactcgacttcttgttg-cgtggctgaatctgtagta-tgttcttgtgtcacaatgttagtcatggacttctggttgcat
















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|74242072|gb|DT649986.1|DT649986
EST:     CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTG                         GGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
genomic: CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattc ... ttattgacagGGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
EST: gi|149009105|gb|EE153803.2|EE153803
EST:     CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTG                         GGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
genomic: CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattc ... ttattgacagGGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
EST: gi|78092274|gb|DV520648.1|DV520648
EST:     CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTG                         GGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
genomic: CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattc ... ttattgacagGGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
EST: gi|148928704|gb|EC873333.2|EC873333
EST:     CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTG                         GGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
genomic: CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattc ... ttattgacagGGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
EST: gi|148972814|gb|EE023800.2|EE023800
EST:     CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTG                         GGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
genomic: CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattc ... ttattgacagGGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
EST: gi|60349194|gb|DN216167.1|DN216167
EST:     CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTG                         GGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
genomic: CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattc ... ttattgacagGGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
EST: gi|148938789|gb|EC883127.2|EC883127
EST:     CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTG                         GGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
genomic: CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattc ... ttattgacagGGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
EST: gi|76917242|gb|DV166726.1|DV166726
EST:     CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTG                         GGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
genomic: CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattc ... ttattgacagGGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
EST: gi|211349360|gb|FL434476.1|FL434476
EST:     CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTG                         GGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
genomic: CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattc ... ttattgacagGGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
EST: gi|78027443|gb|DV495830.1|DV495830
EST:     CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTG                         GGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT
genomic: CAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattc ... ttattgacagGGAGTGGAGGAGGAAATGGAAAGGCATGGGGCTGTGATCTGAGCTACAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGACCGCTAGCAAGTATCTCAAAGATGCTGGAGATGCCCATGGTACAGTAAACATTGATATATCAGTTGgtaagcattcagcttctttattgcaaattcgagtggaggctaacaatctttaatttattatggtgtttatttatctttgcacctgttcaaaacatctggt

- - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - GAGATG