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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccttaattaatttttacccatgtcctctgattatttccatgatagcttttgtgttcattcaaacctgctttcttgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAAAAGTCAGCCATTTCACGAGTATCTCTTTAGTGCATTTGTATTTTCTCTA

Basic information

species Zea mays
transcript GRMZM2G134613_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134613_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g09240.1 (Oryza sativa), 3'ss of exon 3
gtaagcc--ttaattaatttttacccatgtcctctgattatttc--catgatagcttttgtgttcattcaaacctgctttct----tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAAAAGTCAGCCATTTCACGAGTATCTCTTTAGTGCATTTGTATTTTCTCTA
|||||     |   |  || || |   ||   |  | ||| ||   ||||||   ||||||  | ||   || |  ||| ||    |  |||||||||||||||||||||||| |||||||||||||| || ||||||||||| || ||                                               
gtaagttggatggattcttgttgcttgtggtgttcgcttactttgtcatgatta-ttttgttcttatgtgaagcaacttcctgtgattaaatatagGTCATTGTTGAGAAGGCTGAGAGGAGTGACATTCCTGACATTGACAAAAAGAA-----------------------------------------------

upper sequence: GRMZM2G134613_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv19s0090g00580.t01 (Vitis vinifera), 3'ss of exon 3
--gtaagccttaattaatttttacccat---gtcctctgattatttccatgatagcttt-------tgtgttcattcaaacctgctttcttgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAAAAGTCAGCCATTTCACGAGTATCTCTTTAGTGCATTTGTATTTTCTCTA
   | |  |||   |   ||  | | |    ||  |  ||    |   ||| ||  | |       |||  || ||||    |  | |  ||  |||||||| ||||| |||||||| || || |||||||| || |||||||||||||| ||                                               
gtatgaaacttgtgtctcttacatcaagaaagtttttggacgtctcatatgttatgtgtgtctaaatgttgtctttcattatttttctggtgccatatagGTTATTGTGGAGAAGGCTGAAAGAAGTGACATACCTGACATTGACAAGAAGAA-----------------------------------------------
















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|91874881|gb|EB404838.1|EB404838
EST:     GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|91874951|gb|EB404908.1|EB404908
EST:     GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattatttccatgatagcttttgtgttcattcaaacctgctttcttgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAAAAGTCAGCCATTTCACGAGTATCTCTTTAGTGCATTTGTATTTTCTCTA
 ctctgat  putative branch site (score: 4)
                                   cctgctttctt  putative PPT
                                        tttcttgtaatata  TA-rich tract