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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgttcgttataagataggatctcctaaggattaggttgttcagagattctgatgtattcagtataagattttttttctgatttaatcaagttcttgtagGGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACTGTTTCCTGGGGCCTATATTTCTTTTT

Basic information

species Zea mays
transcript GRMZM5G840435_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G840435_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g52430.1 (Oryza sativa), 3'ss of exon 2
gtgttcgttataagataggatctcctaaggattaggttgttcagagattctgatgtattcagtataagatttt----ttttctgatttaatcaagttcttgtagGGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACTGTTTCCTGGGGCCTATATTTCTTTTT
 | |  |   |    || ||  |   ||| ||  |||| ||  |   |||| | || ||  ||||  ||  ||    ||  |||||| | |    |  |||||||| ||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||| ||||||||||||||
atctgtgaactgttgtaagaattga-aagaatgtggttctttcgc--ttctaa-gtttttggtatgcgaagttgagcttcactgattgagttggctatttgtagGGTCTGAGAGGACTTTATGCGGGATTTTATCCAGCAGTTCTTGGATCAACTGTTTCCTGGGGGCTATATTTCTTTTT

upper sequence: GRMZM5G840435_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT5G66380.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgttcgttataagataggatctcctaaggattaggttgttcagagattctgatgtattcagtataagattttttttctgatttaatcaagttcttgtagGGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACTGTTTCCTGGGGCCTATATTTCTTTTT
       ||   ||||   |    ||   |      |  | || |   |||  | |||    | |  | |   |  | || ||||   ||  |  |||||||  ||||||| ||||||||||| || |  || |||||| | || || ||||||||||||||| |||| ||||||||
-----gtttcccagatgaaactctcttctggc---atcttccatattatcttctctatgttatgtg-gttgactcatttggttta---aatcttctgtagGGTTTGAGAGGGCTTTATGCAGGCTTCTTCCCTGCAGTTATCGGTTCTACTGTTTCCTGGGGCTTATACTTCTTTTT
















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|28909797|gb|CB331105.1|CB331105
EST:     CTCCGTACAGGAACACCGCGCATGCTGTGTACACTATCACACGATCTGAG                         GGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACT
genomic: CTCCGTACAGGAACACCGCGCATGCTGTGTACACTATCACACGATCTGAGgtatcatcaa ... gttcttgtagGGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACT
EST: gi|76013124|gb|DT940294.1|DT940294
EST:     CTCCGTACAGGAACACCGCGCATGCTGTGTACACTATCACACGATCTGAG                         GGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACT
genomic: CTCCGTACAGGAACACCGCGCATGCTGTGTACACTATCACACGATCTGAGgtatcatcaa ... gttcttgtagGGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACT
EST: gi|71313594|gb|DR793373.1|DR793373
EST:     CTCCGTACAGGAACACCGCGCATGCTGTGTACACTATCACACGATCTGAG                         GGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACT
genomic: CTCCGTACAGGAACACCGCGCATGCTGTGTACACTATCACACGATCTGAGgtatcatcaa ... gttcttgtagGGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACT
EST: gi|31406342|gb|CD485074.1|CD485074
EST:     CTCCGTACAGGAACACCGCGCATGCTGTGTACACTATCACACGATCTGAG                         GGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACT
genomic: CTCCGTACAGGAACACCGCGCATGCTGTGTACACTATCACACGATCTGAGgtatcatcaa ... gttcttgtagGGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattctgatgtattcagtataagattttttttctgatttaatcaagttcttgtagGGCCTGAGAGGACTTTATGCAGGATTTTATCCCGCAGTTCTTGGATCAACTGTTTCCTGGGGCCTATATTTCTTTTT
                                              ttcttgt  CT-rich tract
                 tataagattttttttc  TA-rich tract