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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagttttactttaagtatggtgtattttgggtggcattttgacttctcttgacatctgatctgtatattctatgttaaag

Basic information

species Zea mays
transcript GRMZM2G017089_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017089_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g21990.1 (Oryza sativa), 5'ss of exon 10
GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagttt-tactttaa-gtatggtgtattttgggtggcattttgac-ttctcttgacatctgatctgtatattctatgttaaag
| |||||||| |||||||| ||||| ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| || || ||  | |||   || | | |    ||||| ||| | || || | |||| |  | | |   ||  || || |||
GGCTTGCTGTGAGCCAACGGCACACATATTTATTTTCTGCTGGTGATGACAAACAAGTAAAGTGTTGGGATCTTGAACAAAACAAGgttagcttatagttcgatgtagattgcagtatacagggcatattggcattatcgtaacattttgtttct---tttcatttttaag

upper sequence: GRMZM2G017089_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA09G04910.1 (Glycine max), 5'ss of exon 9
GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagttttactttaagtatggtgtattttgggtggcattttgacttctcttgacatctgatctgtatattctatgttaaag-------------------
| |||||||| ||| |  | || |||||  | || ||||||||||| || |||||||| |||||||||||||||||||| || ||||| || | | | ||   | |  ||| ||         ||||   |   |  ||  |    |||    |      |  ||||                    
GTCTTGCTGTTAGCAACAGACATACTTACATGTTCTCTGCTGGTGACGATAAACAAGTTAAATGTTGGGATCTTGAACAGAATAAGgtcagatctccatttcatttattgttttggactgaatatttcagcagttactggaactccatcaaattgcaggctactaaaatacatgatattgtatttag

upper sequence: GRMZM2G017089_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA15G15960.2 (Glycine max), 5'ss of exon 8
GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagttttac-tttaagtatggtgtattttgggtggcat-------------tttgacttctcttgacatctgatctgtatattctatgttaaag-------
| |||||||| ||| |  | || |||||  | || |||||||||||||| |||||||| ||||||||||| |||||||| || ||||| |  | | | ||| | ||     | || |||   | ||              |||||| |     | | | |     || | |  ||| ||  |       
GTCTTGCTGTTAGCAACAGACATACTTACATGTTCTCTGCTGGTGATGATAAACAAGTTAAATGTTGGGACCTTGAACAGAATAAGgtcaaatctccgtttcattagtaatttttctggactgaatatttcagcagttacttgactccatcaaataacaggctactaaaatacatgatattgtatttag

upper sequence: GRMZM2G017089_T02 (Zea mays), 5'ss of exon 8
lower sequence: AT3G16650.1 (Arabidopsis thaliana), 5'ss of exon 9
GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgtt--agttttactttaagtatggtgtattttgggtggcattttgacttctcttgacatctgatctgtatattctatgttaaag-----------------
| || ||||| ||| |  | || || ||| | |||||||||||||||||||| ||||| ||||| ||||| ||||| || || ||||||  |  |  |   |   | |  | |  | ||  |   | ||   |||||| |||  |    | |  || | | ||||    |                 
GCCTCGCTGTAAGCAATAGACATACCTATATGTTTTCTGCTGGTGATGACAAGCAAGTCAAATGCTGGGACCTTGAGCAGAATAAGgtttaaactcgatgatggatttcatctcatctgtatattaattactcttctcctgatctgaacttttcatgtccaatgtctttggaatttgtctttgatag

upper sequence: GRMZM2G017089_T02 (Zea mays), 5'ss of exon 8
lower sequence: AT4G15900.1 (Arabidopsis thaliana), 5'ss of exon 9
GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagttttactttaagtatggtgtattttgggtggcattttgacttctcttgacatctgatctgtatattctatgttaaag
| || ||||| ||| | || || || ||| | || ||||||||||||||||| ||||| ||||| ||||| ||||| || || |||||||     ||| ||    |  | |   ||   |||  || | |  |||  ||   |  ||  | |  |||  ||       
GCCTCGCTGTAAGCAATCGACATACCTATATGTTCTCTGCTGGTGATGACAAGCAAGTCAAATGCTGGGACCTTGAGCAGAATAAGgtta---caactcta----ttctcttcattatctggatttctcatatctaatgctcttggaatttttgatttgatag-----

upper sequence: GRMZM2G017089_T02 (Zea mays), 5'ss of exon 8
lower sequence: Vv05s0077g02310.t01 (Vitis vinifera), 5'ss of exon 9
GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagt-tttactttaagtat---ggtgtattttgggtggcattttgacttctcttgacatctgatctgtatattctatgttaaag
| |||||||| ||| |    || || ||| | || || |||||||||||||||||||| ||||| ||||| |||||||| || ||||||||    |  |||||       | || ||  ||     ||  | ||||    || | ||   || | | | |||| |||| |  
GCCTTGCTGTTAGCAACAAACATACATATATGTTCTCAGCTGGTGATGACAAACAAGTTAAATGCTGGGACCTTGAACAGAATAAGgttagaaccttttttaaactcaccgctgaatcctgtactacaagt-gactaaa-ttcatatgctatatattt-ttctttgttcag-

upper sequence: GRMZM2G017089_T02 (Zea mays), 5'ss of exon 8
lower sequence: PP1S402_49V6.1 (Physcomitrella patens), 5'ss of exon 8
GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagttttactttaagtatggtgtattttgggtggcattttgacttctcttgacatctgatctgtatattc-tatgttaaag----------------------------------------------
| ||||| || |||   || ||  |||||||||| || ||||||||||||||||| || |||||||||||||||||| | || |||||  ||      ||       |  | ||    || ||||    | ||   |    |     ||| |  || | | |  || |                                               
GCCTTGCAGTGAGCGCCCGGCATCCTTATTTATTCTCAGCTGGTGATGACAAACAGGTCAAATGTTGGGATCTTGAATACAATAAGgtgtgtccaggcttttacgacgcttgttggttgtagcatccgtaattagttcatgaatgtgtctatgaatccatgtactatatgtatttatcgctgaggatctttgctctggtgtattggtttgtgcag

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|78085590|gb|DV513983.1|DV513983
EST:     CTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG                         GTTATTAGGTCCTACCATGGGCATCTGAGTGGTGTTTACTGCCT
genomic: CTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagtttta ... tatgttaaagGTTATTAGGTCCTACCATGGGCATCTGAGTGGTGTTTACTGCCT
EST: gi|6021220|gb|AW066148.1|AW066148
EST:     CTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG                         GTTATTAGGTCCTACCATGGGCATCTGAGTGGTGTTTACTGCCTAGCTCTC
genomic: CTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagtttta ... tatgttaaagGTTATTAGGTCCTACCATGGGCATCTGAGTGGTGTTTACTGCCTAGCTCTC
EST: gi|32933221|gb|CF038033.1|CF038033
EST:     CTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG                         GTTATTAGGTCCTACCATGGGCATCTGAGTGGTGTTTACTGCCTAGCTCTC
genomic: CTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagtttta ... tatgttaaagGTTATTAGGTCCTACCATGGGCATCTGAGTGGTGTTTACTGCCTAGCTCTC
EST: gi|71416740|gb|DR803804.1|DR803804
EST:     GACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG                         GTTATTAGGTCCTACCATGGGCATCTGAGTGGTGTTTACTGCCTAGCTCTC
genomic: GACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAGgttagtttta ... tatgttaaagGTTATTAGGTCCTACCATGGGCATCTGAGTGGTGTTTACTGCCTAGCTCTC