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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgtagaacaaacatgaagttgaacgtaacttcattttctactaagttttttaaagcatccaatttgtgggaatataatgcatgaatgtctatttgcagGCTGTTCAGGATGGTGTTGACATTCTCAACCTTTCTGTTGGGCCCAATAGCCCACCAACAGCTACACGGACTACTTTTTTGAATCCTTTTGACGCTGCAC

Basic information

species Zea mays
transcript GRMZM2G114394_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os06g48650.3 (Oryza sativa), 3'ss of exon 5
catgtagaacaaacatgaagttgaacgt-aacttcattttctactaagttttttaaagcatccaatttgtgggaatataatgcatgaatgtctat-------ttgcagGCTGTTCAGGATGGTGTTGACATTCTCAACCTTTCTGTTGGGCCCAATAGCCCACCAACAGCTACACGGACTACTTTTTTGAATCCTTTTGACGCTGCAC
       ||  |     |        |  |  |   |  |  |      | |   |||| | |||| ||| ||||  ||||||||| ||| | ||       ||||||||||| ||||||||||||||||||||||||||||||||||| || |||||||| ||||| ||||| |||||||| ||||||||||||||||| |||||||
-------aatgagtgaaacaacatctgccagttatgtaatgcatgtcactatcacaagccttcaatatgtaggaac-taatgcatggatggcaatctgcattttgcagGCTGTGCAGGATGGTGTTGACATTCTCAACCTTTCTGTTGGCCCAAATAGCCCGCCAACTGCTACGCGGACTACATTTTTGAATCCTTTTGATGCTGCAC

upper sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 6
lower sequence: Vv11s0103g00550.t01 (Vitis vinifera), 3'ss of exon 6
catgtagaacaaacatgaagttgaacgtaacttcattttctactaagttttttaaagcatccaatttgtgggaatat-aatgcatgaatgtctatttg--cagGCTGTTCAGGATGGTGTTGACATTCTCAACCTTTCTGTTGGGCCCAATAGCCCACCAACAGCTACACGGACTACTTTTTTGAATCCTTTTGACGCTGCAC
  | | |  ||   || |||       | |  | || | ||  |  | | ||    |  |    ||| |  |  ||| |||  | || |   | | ||  ||||||||||| |||||||| ||||||||||| || ||||| ||||| ||||| || ||| || | ||   ||| || ||||| || |||||||| |||||||
--ttttgcccatgaattaagcatctttttaggtgatat-ctgttggggtattctttgttttttgttttttcgtttattaattgaagacttcttctgtgaacagGCTGTTCATGATGGTGTGGACATTCTCAATCTCTCTGTGGGGCCAAATAGTCCTCCAGCAACCACCAAGACCACGTTTTTAAACCCTTTTGATGCTGCAC
















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|31351455|gb|CD435812.1|CD435812
EST:     ACAGGCTTTTTGGTGGTTACATAGCTGATGTTGTGGCAGCTATTGATCAG                         GCTGTTCAGGATGGTGTTGACATTCTCAACCTTTCTGTTGGGCCCAATAGC
genomic: ACAGGCTTTTTGGTGGTTACATAGCTGATGTTGTGGCAGCTATTGATCAGgtatgatacg ... ctatttgcagGCTGTTCAGGATGGTGTTGACATTCTCAACCTTTCTGTTGGGCCCAATAGC
EST: gi|31354263|gb|CD438620.1|CD438620
EST:     ACAGGCTTTTTGGTGGTTACATAGCTGATGTTGTGGCAGCTATTGATCAG                         GCTGTTCAGTCTGGTGTTGACATTCTCAACCTTTCTGTTGGGCCCAATAGC
genomic: ACAGGCTTTTTGGTGGTTACATAGCTGATGTTGTGGCAGCTATTGATCAGgtatgatacg ... ctatttgcagGCTGTTCAGGATGGTGTTGACATTCTCAACCTTTCTGTTGGGCCCAATAGC
EST: gi|67043292|gb|CO469547.1|CO469547
EST:     ACAGGCTTTTTGGTGGTTACATAGCTGATGTTGTGGCAGCTATTGATCAG                         GCTGTTCAGGATGGTGTTGACATTCTCAACCTTTCTGTTGGGCCCAATAGC
genomic: ACAGGCTTTTTGGTGGTTACATAGCTGATGTTGTGGCAGCTATTGATCAGgtatgatacg ... ctatttgcagGCTGTTCAGGATGGTGTTGACATTCTCAACCTTTCTGTTGGGCCCAATAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttttaaagcatccaatttgtgggaatataatgcatgaatgtctatttgcagGCTGTTCAGGATGGTGTTGACATTCTCAACCTTTCTGTTGGGCCCAATAGCCCACCAACAGCTACACGGACTACTTTTTTGAATCCTTTTGACGCTGCAC
                                            tctattt  CT-rich tract
                           aatataat  TA-rich tract