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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcccagtagataccaattaaacactgcttttgtgttaaatattcatcccaaatttaggttcgtctgtatctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGGACCCCAG

Basic information

species Zea mays
transcript GRMZM2G422464_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G422464_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os02g29230.1 (Oryza sativa), 3'ss of exon 14
---------------------------------------------------------gtaagttcccagt-agatac-caattaaacactgcttttgtgttaaat--attcatcc--caaatttaggttcgtctgtatctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGGACCCCAG------------------------------------------
|| || | | |||| | ||| | ||| | | || || || || | || ||||| | | ||| ||| ||||||| || || ||||||||||||||||||| |||||||||||||| |||||||||||||
gtaagtttgtagcagatataaactaccacctatgtcccaaaatataacaacttctcgctatgtacttgtccaaatacatagccaaatattgccatatttctagattaatgcaagcaataagtttagctctgcttgtgtctgtgcagTTTGATCAAAGAGAACCAGATGATCCCTCCCCATATCTTCTTTCTATATGGACCCCAGGCAAGCTCATGTGCTCCCATCCAACCTTTACTCTTATACAGG
















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|67024294|gb|CO453043.1|CO453043
EST:     TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGA                         TTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
EST: gi|31356899|gb|CD441256.1|CD441256
EST:     TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGA                         TTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
EST: gi|67020656|gb|CO449405.1|CO449405
EST:     TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGA                         TTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
EST: gi|31354340|gb|CD438697.1|CD438697
EST:     TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGA                         TTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
EST: gi|9733108|gb|BE511860.1|BE511860
EST:     TATGAACTGCCAGATTCACACGCCTCTTCTGGAAGGA                         TTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TATGAACTGCCAGATTCACAC-CCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
EST: gi|548043|gb|T25243.1|T25243
EST:     TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGA                         TTCGAACAGNGNGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
EST: gi|32866775|gb|CF006457.1|CF006457
EST:     TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGA                         TTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
EST: gi|31351444|gb|CD435801.1|CD435801
EST:     TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGA                         TTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
EST: gi|67025134|gb|CO453883.1|CO453883
EST:     TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGA                         TTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
EST: gi|31356040|gb|CD440397.1|CD440397
EST:     TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGA                         TTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
EST: gi|67018601|gb|CO447350.1|CO447350
EST:     TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGA                         TTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG
genomic: TTATGAACTGCCAGATTCACACCCTCTTCTGGAAGGAgtaagttccc ... atctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgcttttgtgttaaatattcatcccaaatttaggttcgtctgtatctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGGACCCCAG
                                            tatcttt  CT-rich tract
 ttttgtgttaaatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttcccagtagataccaattaaacactgcttttgtgttaaatattcatcccaaatttaggttcgtctgtatctttgcagTTCGAACAGAGAGAACCAGATGATCCCTGTCCATATCTTCTTTCCATATGGACCCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG