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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcatcagaatgagcaaaatttactatttgctcattgtgtggtttgactgatagtagtgttaacaccagGTTATACCGCAAGCAATCTGTACCAGATATGGCCTAGCAGTGGGTGCTAACTTTGTATGGCTCGTACGCATTCTCATGGTCATTTGCTATCCAATTTCTT

Basic information

species Zea mays
transcript GRMZM2G045892_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G045892_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g32850.1 (Oryza sativa), 3'ss of exon 3
gtattcatcagaatgagcaaaatttactatttgctcattgtgtgg-------tttgactgatagt---agtgttaacaccagGTTATACCGCAAGCAATCTGTACCAGATATGGCCTAGCAGTGGGTGCTAACTTTGTATGGCTCGTACGCATTCTCATGGTCATTTGCTATCCAATTTCTT
|||||    |  |||  |||| | ||   |||    || || | |       | ||| ||||  |   | | ||||| |||||||||||| |||||||||||||| || |||||  | || ||||||||||||||||||||||| |||||||| |||||| |||| |||||||| |||||||
gtattatatattatgtccaaactctatagtttctctatggtcttgcagactgtctgattgattatttaatttttaacgccagGTTATACCACAAGCAATCTGTACTAGGTATGGATTGGCTGTGGGTGCTAACTTTGTATGGCTTGTACGCATCCTCATGATCATCTGCTATCCTATTTCTT

upper sequence: GRMZM2G045892_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA15G11030.1 (Glycine max), 3'ss of exon 3
--------------------------------------------------gtattcatcaga----atgagcaaaatttactatttgctcattgtgtggt--ttgactgatagtagtgt---taacaccagGTTATACCGCAAGCAATCTGTACCAGATATGGCCTAGCAGTGGGTGCTAACTTTGTATGGCTCGTACGCATTCTCATGGTCATTTGCTATCCAATTTCTT
                                                  ||| |||    |    |||| |    ||||  | |  |    |||    |  || |   ||  | |  |   |     |||||||| || |||||||| ||||  ||||||||||| || || || ||||||||||||||||| || || ||  | ||| | || || || ||| || |||
gtatgtgattgtgccatcttttatggttctgtggtttggcatcaacatttgtactcaatgaagattatgaactccttttataagtccccttctgtcccctctttaaactatttttgcctctctggtttcagGTTATTCCACAAGCAATTTGTAGTAGATATGGCCTTGCTGTAGGCGCTAACTTTGTATGGCTTGTCCGAATATTAATGATTATCTGTTACCCAGTTGCTT

upper sequence: GRMZM2G045892_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT4G14230.1 (Arabidopsis thaliana), 3'ss of exon 3
gtattcatcagaatgagcaaaatttactat-ttgctcattgtgtg-gtttgac------tgatagtagtgttaacaccagGTTATACCGCAAGCAATCTGTACCAGATATGGCCTAGCAGTGGGTGCTAACTTTGTATGGCTCGTACGCATTCTCATGGTCATTTGCTATCCAATTTCTT
|||| | |    ||   | |  ||||   | |||||   | | |  | || |       |||     || ||     |||||||| || ||||| || ||||| |||||||| ||||||||||| ||||| || || ||||| || || ||  | |||||  | |  || || || ||||
gtatgctttg--atcttctacctttaaagtcttgctaggtttataagcttcatgagatttgaacactgtttttttttcagGTTATTCCTCAAGCTATATGTACTAGATATGGACTAGCAGTGGGAGCTAATTTGGTCTGGCTTGTTCGTATCTTAATGGTTCTATCGTACCCGATATCTT

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|32839377|gb|CD979058.1|CD979058
EST:     CTGTTGTTGCTGTGGTATTGTCAGTGACATTTGTTCTTGCCTTTGGAGAG                         GTTATACCGCAAGCAATCTGTA
genomic: CTGTTGTTGCTGTGGTATTGTCAGTGACATTTGTTCTTGCCTTTGGAGAGgtattcatca ... ttaacaccagGTTATACCGCAAGCAATCTGTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaaatttactatttgctcattgtgtggtttgactgatagtagtgttaacaccagGTTATACCGCAAGCAATCTGTACCAGATATGGCCTAGCAGTGGGTGCTAACTTTGTATGGCTCGTACGCATTCTCATGGTCATTTGCTATCCAATTTCTT
                                           tgttaac  putative branch site (score: 2)
     tttactattt  TA-rich tract