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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtatattgtttttctttgcttccaatgttactactgtcaatctgtactgctctggactggtctgtttaaaatcgcttctgtttttctgcctacctgTTCGTCAAGCAAGTATGCCATCGTGACTTGAAGCTAGAGAACACCCTGTTGGACGGCAGCACCGCGCCTCGCGTCAAGATATGTGATTTCGGCTACTCAA

Basic information

species Zea mays
transcript GRMZM2G081915_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081915_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g41460.1 (Oryza sativa), 3'ss of exon 2
------------------------gtacgtatattgtttttctttgcttccaatg-----ttactactgtcaatctgtactgc---tctggactggtctgtt---taaaatcgc-------ttctgtttttctgcctacctgTTCGTCAAGCAAGTATGCCATCGTGACTTGAAGCTAGAGAACACCCTGTTGGACGGCAGCACCGCGCCTCGCGTCAAGATATGTGATTTCGGCTACTCAA--
                         |   | ||||  |||||||||| ||||        ||    ||   ||| |  ||      ||  | |  || || |   ||||||             | ||||| |   |   | || |||||||||||||||||||||||| ||||||| |||||||||||| | ||||||||||| ||||||||| |||||||||| || || ||||| ||||  
gtatgtatgatgcccaccaccatcctctctctatt-cttttctttgcctccaccaattaattgtagcttaaaattttgacaagaaatcatgccatgtgtggtagttaaaattctgtggttacctttttttttttttttttttttggtcaagCAAGTATGCCATCGTGACCTGAAGCTGGAGAACACCCTGCTCGACGGCAGCACGGCGCCTCGCCTCAAGATATGCGACTTTGGCTATTCAAAG

upper sequence: GRMZM2G081915_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G29500.1 (Glycine max), 3'ss of exon 4
gtacgtatattgtttttctttgcttccaatgttactactgtcaatctgtactgctctggactggtctgtttaaaatcgcttctgtttttctgcctacctg-
                     |     ||  |    |   | | ||| |||| ||    |  ||| |  | |    |     ||  | |||   || ||   ||  | ||||||||||||||||||||||||||| | ||||||||  ||||||| || ||  | || |||||  | ||||| |||||||| || || ||||  
---------------------gtacataagttcggcatctttagtctttact-cttacaataggtataatgagttgctgacttgaatgtctatttatcttatttaataaagCAAGTATGCCATCGTGACTTGAAGTTGGAGAACACATTGTTGGATGGTAGTCCAGCTCCTCGTTTGAAGATTTGTGATTTTGGGTATTCAAAG

upper sequence: GRMZM2G081915_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G01240.1 (Glycine max), 3'ss of exon 4
gtacgtatattgtttttctttgcttccaatgttactactgtcaatctgtactgctctggactggtctgtttaaaatcgcttctgtttttctgcctacctgTTCGTCAAGCAAGTATGCCATCGTGACTTGAAGCTAGAGAACACCCTGTTGGACGGCAGCACCGCGCCTCGCGTCAAGATATGTGATTTCGGCTACTCAA--
|||| ||  ||     |||||  |       |||||  |  ||||  |||      ||   || |   || ||    | |||| ||| |||   ||  |     | ||||||||||||||||||||||||||| | ||||||||  || |||| || ||  | || |||||  | ||||| |||||||| || || || |  
gtacataagttcggcatctttagtct-----ttactttta-caataggtataa---tgagttgctgacttcaa---tgtttctatttatct---tattta---ataaagCAAGTATGCCATCGTGACTTGAAGTTGGAGAACACATTGCTGGATGGTAGTCCAGCTCCTCGTTTGAAGATTTGTGATTTTGGGTATTCGAAG

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|149112537|gb|EE295397.2|EE295397
EST:     GTTTCTTTTTCCAACAACTCATATCAGGGGTCAGCTACTGCCATTCCATG                         T-----A------T--GCCATCGTGACTTGAAGCTAGAGAACACCCTGTTG
genomic: GTTTCTTTTTCCAACAACTCATATCAGGGGTCAGCTACTGCCATTCCATGgtacgtatat ... tgcctacctgTTCGTCAAGCAAGTATGCCATCGTGACTTGAAGCTAGAGAACACCCTGTTG
EST: gi|78080573|gb|DV508985.1|DV508985
EST:     GTTTCTTTTTCCAACAACTCATATCAGGGGTCAGCTACTGCCATTCCATG                         --C---AAG----TATGCCATCGTGACTTGAAGCTAGAGAACACCCTGTTG
genomic: GTTTCTTTTTCCAACAACTCATATCAGGGGTCAGCTACTGCCATTCCATGgtacgtatat ... tgcctacctgTTCGTCAAGCAAGTATGCCATCGTGACTTGAAGCTAGAGAACACCCTGTTG
EST: gi|149005339|gb|EE039890.2|EE039890
EST:     GTTTCTTTTTCCAACAACTCATATCAGGGGTCAGCTACTGCCATTCCATG                         --C---AAG----TATGCCATCGTGACTTGAAGCTAGAGAACACCCTGTTG
genomic: GTTTCTTTTTCCAACAACTCATATCAGGGGTCAGCTACTGCCATTCCATGgtacgtatat ... tgcctacctgTTCGTCAAGCAAGTATGCCATCGTGACTTGAAGCTAGAGAACACCCTGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtactgctctggactggtctgtttaaaatcgcttctgtttttctgcctacctgTTCGTCAAGCAAGTATGCCATCGTGACTTGAAGCTAGAGAACACCCTGTTGGACGGCAGCACCGCGCCTCGCGTCAAGATATGTGATTTCGGCTACTCAA
                                 cttctgtttttctgcc  CT-rich tract
                     tgtttaaaat  TA-rich tract