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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGTGAGAATCTACTGGTGAACATGAGGGATCCACAGCGACCAATCTGCAAGgtttgatcccttccccagcctttccctacgccgctttatctttctggggaattcttgtcgcaatgctggatatcttctcctgacttctccccaacacaaatactctgatcag

Basic information

species Zea mays
transcript GRMZM2G039106_T03
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G039106_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g54510.2 (Oryza sativa), 5'ss of exon 6
TGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGTGAGAATCTACTGGTGAACATGAGGGATCCACAGCGACCAATCTGCAAGgtttgatcccttccccagcctttccctacgccgctttatctttctggggaattcttgtcgcaatgctggatatcttctcctgacttctccccaacacaaatactctgatcag
|||||||||||||||||| |||||||||||||| |||||||| || ||||||||||| |||||||| ||||||||||||||||| |||||||||||||| ||||||||||| |||   | | | | |      ||      ||      |||  ||||  |    |||     |  |  |    |||| | ||                   
TGGCATGGAATATTTGCATGGGAAGAATATAGTTCATTTTGATCTAAAGTGTGAGAACCTACTGGTCAACATGAGGGATCCACAACGACCAATCTGCAAAgtttgatccctgccctctcatcttcat---ttcctcagctcttgcttcaaatggttgttacctgactgtcatcccacctccattttctgctcag------------------

upper sequence: GRMZM2G039106_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA13G01190.2 (Glycine max), 5'ss of exon 8
TGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGTGAGAATCTACTGGTGAACATGAGGGATCCACAGCGACCAATCTGCAAGgtttgatcccttccccagcctttccctacgccgctttatctt----tctggggaattcttgtcgcaatgctggatatcttctcctgacttctccccaacacaaatactctgatcag
||| ||||| |||||||| || || || || || ||||||||  |||| |||||||||||| |||| || ||||| ||||| || || || |||||||||||   |  | |       | |   | ||| | | |  |         |    | |  ||  | ||   | | || ||    |         |   ||                   
TGGGATGGAGTATTTGCATGGAAAAAACATTGTTCATTTTGATTTGAAATGTGAGAATCTATTGGTCAATATGAGAGATCCTCAACGGCCTATCTGCAAGgt---acacataagaatacatacacatacactgatgcagacaaaagccaaaagcaacctgctagcggagattgaaatgagatttgtgtaatttttcag------------------

upper sequence: GRMZM2G039106_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA17G07320.1 (Glycine max), 5'ss of exon 11
TGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGTGAGAATCTACTGGTGAACATGAGGGATCCACAGCGACCAATCTGCAAGgtttgatcccttccccagcctttccctacgccgctttatctttctggggaattcttgtcgcaatgctggatatcttctcctgacttctccccaacacaaatactctgatcag
||| ||||| |||||||| || || || || || ||||||||  |||| |||||||||||| |||| || ||||| ||||| || || || |||||||||||             ||  |         |  ||   |     |    | |  ||  | ||   | | || ||    |         |   ||                   
TGGGATGGAGTATTTGCATGGAAAAAACATTGTGCATTTTGATTTGAAATGTGAGAATCTATTGGTCAATATGAGAGATCCTCAACGGCCTATCTGCAAGgtacacataagaatacattcacatatactgaggcaacaaaagccaaacgcaacctgctagcggagattgaaatgagatttgtgtaatttttcag------------------

upper sequence: GRMZM2G039106_T03 (Zea mays), 5'ss of exon 4
lower sequence: AT5G57610.1 (Arabidopsis thaliana), 5'ss of exon 6
TGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGTGAGAATCTACTGGTGAACATGAGGGATCCACAGCGACCAATCTGCAAGgtttgatcccttccccagcctttccctacgccgctttatctttctggggaattcttgtcgcaatgctggatatcttctcctgacttctccccaacacaaatactctgatcag
||| ||||| ||||||||||| ||||| || || ||||| ||  |||||||||||||||| || ||||||||||| ||||| ||||| || || |||||||||   |   | | |      |  |  |     |            |  |  |  | |     |  |  || |  |||      |||   |||                   
TGGGATGGAGTATTTGCACGGAAAGAACATTGTTCATTTCGATTTGAAGTGTGAGAATCTTCTTGTGAACATGAGAGATCCTCAGCGTCCTATATGCAAGgttctgttgttactcatctgatctctcatataacaaag-------agtaagcttatatgtttctcataaattttgtctttctttttccttccag------------------

upper sequence: GRMZM2G039106_T03 (Zea mays), 5'ss of exon 4
lower sequence: EFJ30928 (Selaginella moellendorffii), 5'ss of exon 3
TGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGTGAGAATCTACTGGTGAACATGAGGGATCCACAGCGACCAATCTGCAAGgtt-tgatcccttccccagcctttccctacgccgctttatctttctggggaattcttgt-cgcaatgctggatatcttctcctgacttctccccaacacaaatactctgatcag
||| ||||| ||| | ||||| ||||| || || ||||| ||||||||||| |||||| | ||||| ||||||||||||||||| || ||| | ||||||||  ||||  ||||    | || ||  |      ||||  |||| | | || |   ||| | |  | |  |                                           
TGGGATGGAGTATCTACACGGAAAGAACATCGTTCATTTCGACCTGAAGTGCGAGAATTTGCTGGTCAACATGAGGGATCCACATCGGCCAGTGTGCAAGgtaatgatatcttc----gtctctcgtt------ctttcactttgtagtgagtgactgtgcacgtttccag-------------------------------------------

upper sequence: GRMZM2G039106_T03 (Zea mays), 5'ss of exon 4
lower sequence: EFJ17246 (Selaginella moellendorffii), 5'ss of exon 3
TGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGTGAGAATCTACTGGTGAACATGAGGGATCCACAGCGACCAATCTGCAAGgtt-tgatcccttccccagcctttccctacgccgctttatctttctggggaattcttgt-cgcaatgctggatatcttctcctgacttctccccaacacaaatactctgatcag
||| ||||| ||| | ||||| ||||| || || ||||| ||||||||||| |||||| | ||||| ||||||||||||||||| || ||| | ||||||||  ||||  ||||    | || ||  |      ||||  |||| | | || |   ||| | |  | |  |                                           
TGGGATGGAGTATCTACACGGAAAGAACATCGTTCATTTCGACCTGAAGTGCGAGAATTTGCTGGTCAACATGAGGGATCCACATCGGCCAGTGTGCAAGgtaatgatatcttc----gtctctcgtt------ctttcgctttgtagtgagtgactgtgcacgtttccag-------------------------------------------

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|6465660|gb|AW191119.1|AW191119
EST:     CAATCTGCAAG                         ATCGGTGATCTCGGGCTATCAAAGGTTAANCAGCATACTTTGGTATCTGGT
genomic: CAATCTGCAAGgtttgatccc ... ctctgatcagATCGGTGATCTCGGGCTATCAAAGGTTAAACAGCATACTTTGGTATCTGGT