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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAAAAGCCTCCAGAGCTTCCAGAGGACAAGGACCGGGCCATACAAGATTCTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgccaaacaatgcttatggacctcatgctgcttagaattgctttggcttttgcctttatagttcaagcgccatggtacctttaatatcacttctt...

Basic information

species Zea mays
transcript GRMZM2G452580_T01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G452580_T01 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os02g48990.1 (Oryza sativa), 5'ss of exon 13
CAAAAAGCCTCCAGAGCTTCCAGAGGACAAGGACCGGGCCATACAAGATTCTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgccaaacaatgcttatggacctcatgctgcttaga-attgctttggcttttgcctttatagttcaagcgccatggtacctttaatatcacttctt
|| ||||||||||||| ||||| |||| ||||| || || ||||| |||||||||||||||||||||| |||||| ||||||||| |||||||||||||||||   |      |   |  | ||   |  ||    | |   || |   || |||||   ||| ||| |  |  |  | | |  || | || |   | |  
CAGAAAGCCTCCAGAGATTCCACAGGATAAGGATCGTGCTATACAGGATTCTTTTGACAGGATAAAGTGCATTGAATTTGATCTGGAGAAGACAAAGAAGgtaatggtgttttaccacagaagggtgttctgtaattgaattatggtgctgacttttttttttgtaggtttaaggtta-gctctctgtcatgtgcttacca
















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|113702853|gb|EE680357.1|EE680357
EST:     CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
genomic: CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
EST: gi|5919382|gb|AW054479.1|AW054479
EST:     CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
genomic: CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
EST: gi|32803068|gb|CD955304.1|CD955304
EST:     CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
genomic: CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
EST: gi|67015738|gb|CO444487.1|CO444487
EST:     CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
genomic: CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
EST: gi|4624363|gb|AI615196.1|AI615196
EST:     CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
genomic: CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
EST: gi|211320220|gb|FL223755.1|FL223755
EST:     CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
genomic: CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
EST: gi|86470348|gb|DY236718.1|DY236718
EST:     ATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
genomic: ATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
EST: gi|31356668|gb|CD441025.1|CD441025
EST:     CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
genomic: CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
EST: gi|166660064|gb|EG171729.1|EG171729
EST:     TTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGG
genomic: TTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGG
EST: gi|91048757|gb|EB159175.1|EB159175
EST:     CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCCACAGTTATCAAAACAA-TGCAGATGGCAGAAAACCTTGG
genomic: CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAA-CAAATGCAGATGGCAGAAA-CCTTGG
EST: gi|4776546|gb|AI665549.1|AI665549
EST:     CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAG                         GTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA
genomic: CTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgcca ... gttctttcagGTATTGCATGCAACAGTTATCAAACAAATGCAGATGGCAGAAACCTTGGAA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAAAAGCCTCCAGAGCTTCCAGAGGACAAGGACCGGGCCATACAAGATTCTTTTGACAGGATAAAGTCCATTGAGTTTGATCTGCAGAAGACAAAGAAGgtacctgccaaacaatgcttatggacctcatgctgcttagaattgctttggcttttgcctttatagttcaagcgccatggtacctttaatatcacttctt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG