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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatttttcagctcattttgtgaatccactgcagaagtattctggtcttcgatattaactttgcaatataacttacatctatcatatatactgatttcagGTATACTTCCATTGGGAGCATACACGATACTGTTCCAAATGCACTCCTTAGTGATTCATCATCTGAGAAAAGTTTTAGACCAGCATACATGCTAACTGAT

Basic information

species Zea mays
transcript GRMZM2G381933_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G381933_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g15490.3 (Oryza sativa), 3'ss of exon 6
ttatttttcagctcattttgtgaatccactgcagaagtattctggtcttcgatattaactttgcaatataacttacatctatcatata----tactgatttcagGTATACTTCCATTGGGAGCATACACGATACTGTTCCAAATGCACTCCTTAGTGATTCATCATCTGAGAAAAGTTTTAGACCAGCATACATGCTAACTGAT
       | | ||  |  | | |  |   ||     |   | | |  ||| |||| ||||||  | | || ||||||  | |||| ||    |  || ||  ||||||||||||||||| |||||| | ||||||||||| ||||| || ||| |||||||| || ||| |||||||||||| |||||||||||| || | || 
---aaagttaccttgtaatttaagccacttgagagtgctatatagatttccatataaactttctagtttatcttacaa-tgtcatgtacttgtgttgtttctagGTATACTTCCATTGGAAGCATATATGATACTGTTCCCAATGCGCTTCTTTGTGATTCAACAACTGGGAAAAGTTTTAGGCCAGCATACATGTTATCAGAC

upper sequence: GRMZM2G381933_T03 (Zea mays), 3'ss of exon 6
lower sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 7
--------------------------------------------------------------------ttattt-ttcagctcattttgtgaatcca----------ctgcagaagtatt-ctggtcttcgatattaac-tttgcaatataacttacatctatcatatatactgattt------cagGTATACTTCCATTGGGAGCATACACGATACTGTTCCAAATGCACT------CCTTAGTGATTCATC----ATCTGAGAAAAGTTTTAGACCAGCATACATGCTAACTGAT
                                                                    |||||  ||  |   ||  ||  |||  |          ||  |||| ||   ||||  ||| |  ||  | || | | || ||  |   | |||  |  ||| |  |||       || |||||||| |||||||||||||| || || |||||||||||  |      | | |   |||| ||    | |  |||||||||| ||||| |||||  ||         
gtaatcctttctgtctggcttggaatttattactcaaattttgttggtaccagcaatggtttttagttttattagtttggtgtatgatgcaaatatatgacatgttcctttagaaataaaactggatttctacttttgcattcgtattaaaatatttttttattgttaatatttctttattttatagTTATACTTCAATTGGGAGCATACATGACACGGTTCCAAATGCCTTGTTGTGCGTCAACAATTCTTCCAGTAGCAAAGAAAAGTTT-AGACCTGCATATCTG---------
















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|33770862|gb|CF273156.1|CF273156
EST:     TCTTTTCTAATAACATGTAAGGTCAAATACTGCAGCCTTTATGATCAAGG                         GTATACTTCCATTGGGAGCATACATGATACTGTTCCAAATGCACTCCTTAG
genomic: TCTTTTCTAATAACATGTAAGGTCAAATACTGCAGCCTTTATGATCAAGGgtaggttctt ... ctgatttcagGTATACTTCCATTGGGAGCATACACGATACTGTTCCAAATGCACTCCTTAG
EST: gi|31353159|gb|CD437516.1|CD437516
EST:     TCTTTTCTAATAACATGTAAGGTCAAATACTGCAGCCTTTATGATCAAGG                         GTATACTTCCATTGGGAGCATACACGATACTGTTCCAAATGCACTCCTTAG
genomic: TCTTTTCTAATAACATGTAAGGTCAAATACTGCAGCCTTTATGATCAAGGgtaggttctt ... ctgatttcagGTATACTTCCATTGGGAGCATACACGATACTGTTCCAAATGCACTCCTTAG
EST: gi|32932020|gb|CF036832.1|CF036832
EST:     TCTTTTCTAATAACATGTAAGGTCAAATACTGCAGCCTTTATGATCAAGG                         GTATACTTCCATTGGGAGCATACACGATACTGTTCCAAATGCACTCCTTAG
genomic: TCTTTTCTAATAACATGTAAGGTCAAATACTGCAGCCTTTATGATCAAGGgtaggttctt ... ctgatttcagGTATACTTCCATTGGGAGCATACACGATACTGTTCCAAATGCACTCCTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcgatattaactttgcaatataacttacatctatcatatatactgatttcagGTATACTTCCATTGGGAGCATACACGATACTGTTCCAAATGCACTCCTTAGTGATTCATCATCTGAGAAAAGTTTTAGACCAGCATACATGCTAACTGAT
                   aatataacttacat  TA-rich tract