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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtgttctctttcagtttattagcccgttatacatatatgcattgtgagaagcataactatgcatgacaatcttggcttttcttttggtagttctctggtctcaaccaaactctatggttatgctgctattgttttatctagGTTGGAGCTTTTGAAGGACATGAAGAGTTGTCACCTCTTGGGTATCATCTGGCGAAACTGCCTGTTGATGTTTTGATTGGAAAG

Basic information

species Zea mays
transcript GRMZM2G013283_T02
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013283_T01 (Zea mays), 3'ss of exon 23
lower sequence: LOC_Os04g35260.1 (Oryza sativa), 3'ss of exon 23
gttgtgttct-ctttcagtttattagcccgttatacatatatgcattgtgagaagcataactatgcatgacaatcttggcttttcttttggtagttctctggtctcaaccaaactctatggttatgctgctattgttttatctagGTTGGAGCTTTTGAAGGACATGAAGAGTTGTCACCTCTTGGGTATCATCTGGCGAAACTGCCTGTTGATGTTTTGATTGGAAAG
||| | |||| | ||  ||    ||   | |||| ||| | |||||  | || |||| ||         ||| | ||||| | || ||| ||||||||        ||||||||| |||   | |    ||  |||  | | ||||||||||| |||||||||||||| || || ||||||||||| |||||| |||| ||| |||| |||||||||||||||||||||
gttctattctgccttttgtcatataaatctttattcatgtgtgcat-attagtagcagaa---------acatttttggcatatccttttgtagttctt-------aaccaaactttata-ctgt----ctggtgtcatgtgtagGTTGGAGCATTTGAAGGACATGAGGAATTATCACCTCTTGGCTATCATTTGGCCAAATTGCCAGTTGATGTTTTGATTGGAAAG

upper sequence: GRMZM2G013283_T01 (Zea mays), 3'ss of exon 23
lower sequence: AT1G58060.1 (Arabidopsis thaliana), 3'ss of exon 24
gttgtgttctctttcagtttattagcccgttatacatatatgcattgtgagaagcataactatgcatgacaatcttggcttttcttttggtagttctctggtctcaaccaaactctatggttatgctgctattgttttatctagGTTGGAGCTTTTGAAGGACATGAAGAGTTGTCACCTCTTGGGTATCATCTGGCGAAACTGCCTGTTGATGTTTTGATTGGAAAG
                                      |    ||||   |||    ||||| | | || | | |||    | | ||||  |||| | | |||    |  | || | | ||   |       ||| || | |||||||| ||| |||||||  ||||||||||| |||| |||||| ||||| | || ||||| ||||||||||| || |||||||||
----------------------------------ttagttccgattgatggaatatcaactaagta-gagagttttg--catacctttgagagtttttttgtc----ctgagctttctcgt---gtgaaccctgtcttctttagGTTGGTGCTGTTGAAGGGGATGAAGAGTTGACACCACTTGGGCATCATTTAGCCAAACTTCCTGTTGATGTGTTAATTGGAAAG

upper sequence: GRMZM2G013283_T01 (Zea mays), 3'ss of exon 23
lower sequence: Vv12s0035g00800.t01 (Vitis vinifera), 3'ss of exon 22
gttgtgttctctttcagtttattagcccgttatacatatatgcattgtgagaagcataactatgcatgacaatcttggcttttcttttggtagttctctggtctcaaccaaactctatggttatgctgctattgttttatctagGTTGGAGCTTTTGAAGGACATGAAGAGTTGTCACCTCTTGGGTATCATCTGGCGAAACTGCCTGTTGATGTTTTGATTGGAAAG
                               || |  | ||  | | |    |  | || |||   | |  |    |    || |||  | | || ||     ||| ||||  |      ||   || | |||        |||||||| ||| |||||||  ||||||||||| | ||||||||| ||||| |||| ||||| ||||||||||| || |||||||||
------------------------------aattctgacatttactttacccaataaaattattagtaattactcag----ttttttgagcatttatcaaaattcatccaa--tactcaattggactaccatt--------tagGTTGGTGCTATTGAAGGGGATGAAGAGTTGACGCCTCTTGGGCATCATTTGGCTAAACTTCCTGTTGATGTGTTAATTGGAAAG

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|32915243|gb|CF020055.1|CF020055
EST:     AGCCCCCTAATGAAGAAGCTATTTCCTCTGCAGTTGACTTGTTATACAAG                         GTTGGAGCTTTTGAAGGACATGGAGAGTTGTCACCTCTTGGGTATCATCTG
genomic: AGCCCCCTAATGAAGAAGCTATTTCCTCTGCAGTTGACTTGTTATACAAGgttgtgttct ... ttttatctagGTTGGAGCTTTTGAAGGACATGAAGAGTTGTCACCTCTTGGGTATCATCTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtagttctctggtctcaaccaaactctatggttatgctgctattgttttatctagGTTGGAGCTTTTGAAGGACATGAAGAGTTGTCACCTCTTGGGTATCATCTGGCGAAACTGCCTGTTGATGTTTTGATTGGAAAG
                                             ttttatct  CT-rich tract
                                        tattgttttatcta  TA-rich tract