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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtggtgattttggttaatctgagtatgagttaccctgaaatgcctttagtggagcttcctgacaaatattgatctcacatatttttttttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTGGCTATCCGCCTCAGGCCAACTACCTTTTCTTGGGTGATTATGTGGATCG

Basic information

species Zea mays
transcript GRMZM2G112240_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G112240_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g57450.2 (Oryza sativa), 3'ss of exon 1
----gtgtggtgattttggttaatctgagtatgagttaccctgaaatgcctttagtggagcttcctgacaaatattgatctcacatatttttttttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTGGCTATCCGCCTCAGGCCAACTACCTTTTCTTGGGTGATTATGTGGATCG
     | |  ||| ||    || |     | ||||  | ||| ||    ||||| |    | || | | |  |||| ||||  |||| ||| ||  ||||||||||||||| ||||| ||||| ||||||||||||||||| |||||||||||||| ||||| |||||| ||||||| || |||||||| ||||||||||| ||
attttttttatgaattccaatattt--gttgtgagcaaaccttaagcagctttaataacacgtcatcaaatttattaatcttgcataatttctt--ctgatcagGTGATGTTCATGGACAGTATTCTGATCTCCTGAGGCTGTTTGATTATGGTGGGTATCCACCTCAGTCCAACTATCTCTTCTTGGGCGATTATGTGGACCG

upper sequence: GRMZM2G112240_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA20G36510.1 (Glycine max), 3'ss of exon 1
gtgtggtgattttggttaatctgagtatgagttaccctgaaatgcctttagtggagcttcctgacaaatattgatctcacatatttttttttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTGGCTATCCGCCTCAGGCCAACTACCTTTTCTTGGGTGATTATGTGGATCG
 ||| ||  ||    ||    |   ||     |||  |    ||  ||     ||      ||  |    ||  |   |    |||| ||      ||||||||||| ||||| || || ||||||||  | ||||| ||||| ||||| ||    || ||| ||||||||||| | || ||||| ||||||||||||||
ttgtagtccttagtattgcaattgctacatagtactgtattttggtttacagagaaaaaattgtgatgatttcttaaaagtccttttgttgatctctcagGTGATGTACATGGTCAATATTCTGATCTTTTAAGGCTTTTTGAGTATGGCGGACTACCTCCTGAGGCCAACTACTTATTTTTGGGGGATTATGTGGATCG

upper sequence: GRMZM2G112240_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ32796 (Selaginella moellendorffii), 3'ss of exon 1
gtgtggtgattttggttaatctgagtatgagttaccctgaaatgcctttagtg-gagcttcctgacaaatattgatctcacatatttttttttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTGGCTATCCGCCTCAGGCCAACTACCTTTTCTTGGGTGATTATGTGGATCG
 | ||    | ||   |    |   | |  |  |     |  |||  || ||  ||  || ||      | |       | || ||| ||  | ||   ||||||  |||| ||||||||||| |||||| |||| || ||||| |||||||||| ||| ||  ||||||||||| | ||| ||||||| ||||| |||||
ttttgcccgtgtttagtgtctttgttctatggcatagccacttgctctttgtctgaaatttcttttgtttctcacgagaagatttttcttcgtgtg-ctagGTGACATCCACGGCCAGTACTCGGATCTCTTGAGACTGTTTGAGTATGGTGGCTTTCCTCCCGAGGCCAACTACTTGTTCCTGGGTGACTATGTTGATCG

upper sequence: GRMZM2G112240_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ20637 (Selaginella moellendorffii), 3'ss of exon 1
gtgtggtgattttggttaatctgagtatgagttaccctgaaatgcctttagtg-gagcttcctgacaaatattgatctcacatatttttttttctg-atcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTGGCTATCCGCCTCAGGCCAACTACCTTTTCTTGGGTGATTATGTGGATCG
 | ||    | ||  ||    |   | |  |  |     |  |||  || ||  ||  || ||      | |    |    | |||||| ||  ||    ||||||  |||| ||||||||||| |||||| |||| || ||||| |||||||||| ||| ||  ||||||||||| | ||| ||||||| ||||| |||||
ttttgcccgtgtttattgtctttgttctatggcatagccacttgctctttgtctgaaatttct--ttggtttctcacgagaagatttttcttcgtgtgctagGTGACATCCACGGCCAGTACTCGGATCTCTTGAGACTGTTTGAGTATGGTGGCTTTCCTCCCGAGGCCAACTACTTGTTCCTGGGTGACTATGTTGATCG

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|31360679|gb|CD445036.1|CD445036
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|31358693|gb|CD443050.1|CD443050
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|60354715|gb|DN221688.1|DN221688
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|47961397|gb|CN844106.1|CN844106
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|32867250|gb|CF006932.1|CF006932
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|78081005|gb|DV509417.1|DV509417
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|60398519|gb|DN231335.1|DN231335
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|32862758|gb|CF002440.1|CF002440
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|71326725|gb|DR800025.1|DR800025
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|78109282|gb|DV527698.1|DV527698
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|44682198|gb|CK787246.1|CK787246
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|13516130|gb|BG518406.1|BG518406
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|78085668|gb|DV514061.1|DV514061
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
EST: gi|67039396|gb|CO465651.1|CO465651
EST:     CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCG                         GTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG
genomic: CCTGCAGCAGCCCAACCTGCTGGAGCTCGAGGCCCCCATCAAAATCTGCGgtattccccc ... ttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttagtggagcttcctgacaaatattgatctcacatatttttttttctgatcagGTGATGTCCATGGCCAGTACTCTGATCTCCTGAGGCTATTTGATTATGGTGGCTATCCGCCTCAGGCCAACTACCTTTTCTTGGGTGATTATGTGGATCG
                                  catatttttttttct  CT-rich tract
                    aaatattgatctcaca  TA-rich tract