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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaactgcatgtactgcatctatatgttttatattataataacagtggtcgtttactaatcagcttgatttgttgaacatgctgtctctattttcagTGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGTCGTGTGCGAGAAACTGCGCGAACTTGCAGGAATGACTGCCATCTAGTGC

Basic information

species Zea mays
transcript GRMZM2G050394_T04
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G050394_T06 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os12g34870.1 (Oryza sativa), 3'ss of exon 7
---gtgagaac-tgcatgtactgcatctatatgttttatattataataacagtggtcgtttactaatcagcttgatttgttgaacatgctgtctctattttcagTGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGTCGTGTGCGAGAAACTGCGCGAACTTGCAGGAATGACTGCCATCTAGTGC
   || |  || | |||||  | |||  ||   |  |      |||| | |  |   |||   | | ||     ||||  ||| || | | ||||  |||||||||| |||||||| || || ||| |||| ||||||||| | || ||||| || ||||| ||||| || || ||||| |||||||||||||| || ||||||
tttgtcaatacatacatgttatacatgaattaatcatccccactaatcatatagtatgttcttttaccaat---atttcctga-caagttctctcatttttcagTGGGTTTGCCACCTTTGCAAGATTAGGTCCTCAGACAGCAATCACCTTCGTTGTGTGTGAGAAGCTTCGTGAACTCGCAGGAATGACTGCTATTTAGTGC
















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|88749392|gb|DY533533.1|DY533533
EST:     GTTGTGGTGACAGAGGGTGGGAAGTCACTTTATAAAGG                         TGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGCCAACGATTACCTTTGT
genomic: GTTGTGGTGACAGAGGGTGTGAAGTCACTTTATAAAGGgtgagaactg ... ctattttcagTGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
EST: gi|71445441|gb|DR826491.1|DR826491
EST:     GTTGTGGTGACAGAGGGTGTGAAGTCACTTTATAAAGG                         TGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
genomic: GTTGTGGTGACAGAGGGTGTGAAGTCACTTTATAAAGGgtgagaactg ... ctattttcagTGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
EST: gi|19769878|gb|BQ034599.1|BQ034599
EST:     GTTGTGGTGACAGAGGGTGTGAAGTCTCTTTATAAAGG                         TGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
genomic: GTTGTGGTGACAGAGGGTGTGAAGTCACTTTATAAAGGgtgagaactg ... ctattttcagTGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
EST: gi|78544092|gb|DV621590.1|DV621590
EST:     GTTGTGGTGACAGAGGGTGTGAAGTCTCTTTATAAAGG                         TGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
genomic: GTTGTGGTGACAGAGGGTGTGAAGTCACTTTATAAAGGgtgagaactg ... ctattttcagTGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
EST: gi|19769988|gb|BQ034709.1|BQ034709
EST:     GTTGTGGTGACAGAGGGTGTGAAGTCTCTTTATAAAGG                         TGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
genomic: GTTGTGGTGACAGAGGGTGTGAAGTCACTTTATAAAGGgtgagaactg ... ctattttcagTGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
EST: gi|19769481|gb|BQ034202.1|BQ034202
EST:     GTTGTGGTGACAGAGGGTGTGAAGTCTCTTTATAAAGG                         TGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
genomic: GTTGTGGTGACAGAGGGTGTGAAGTCACTTTATAAAGGgtgagaactg ... ctattttcagTGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
EST: gi|60399938|gb|DN232745.1|DN232745
EST:     GTTGTGGTGACAGAGGGTGTGAAGTCACTTTATAAAGG                         TGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT
genomic: GTTGTGGTGACAGAGGGTGTGAAGTCACTTTATAAAGGgtgagaactg ... ctattttcagTGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtggtcgtttactaatcagcttgatttgttgaacatgctgtctctattttcagTGGATTTGCCACATTCGCGAGAGTAGGCCCTCAGACAACGATTACCTTTGTCGTGTGCGAGAAACTGCGCGAACTTGCAGGAATGACTGCCATCTAGTGC
                                       ctgtctctattttc  CT-rich tract
         tttactaat  TA-rich tract