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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCACTTGGTGCTGCAAAAGGTCTTGCTTTTCTCCATGAAGAAGCTCAAAGACCTGTAATCTATCGTGATTTTAAGACGTCTAATATTCTATTAGATGCggtatgtgagttaaccaggaaaaaggtttttaattattttctatccatcctccaacataaaaacataaaaacataattgttttta

Basic information

species Glycine max
transcript GLYMA18G49060.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G49060.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g40590.1 (Oryza sativa), 5'ss of exon 4
TTGCACTTGGTGCTGCAAAAGGTCTTGCTTTTCTCCATGAAGAAGCTCAAAGACCTGTAATCTATCGTGATTTTAAGACGTCTAATATTCTATTAGATGCggtatgtgagttaaccaggaaa--aaggtttttaattattttctatccatcctccaacataaaaacataaaa-acataattgttttta-
  |||||||||||||| || || ||||||||||| |||||||||||| |||| || || |||||||| ||||| || || || |||||||| ||||| ||||||||  |        |  ||  ||    | | |  | | |  ||  |   |  |||||    | ||     | ||| |  |||| | 
-AGCACTTGGTGCTGCTAAGGGCCTTGCTTTTCTTCATGAAGAAGCTGAAAGGCCAGTTATCTATCGGGATTTCAAAACTTCAAATATTCTTTTAGACGCGgtatgcaaccatgtttgagaatcaaaacatattagaaatgttcatttagattgtaacattctcatatttcttaaatattcattttcag

upper sequence: GLYMA18G49060.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 5'ss of exon 4
TTGCACTTGGTGCTGCAAAAGGTCTTGCTTTTCTCCATGAAGAAGCTCAAAGACCTGTAATCTATCGTGATTTTAAGACGTCTAATATTCTATTAGATGCggtatgtgagttaaccaggaaaaaggtttttaattattttctatccatcctccaacataaaaacataaaaacataattgttttta---
 ||| ||||| || ||||| ||||||||||| || |||||||||||  ||||||| || || || ||||||||||| || |||||||| ||  ||||||| ||| ||       ||  |||   | ||    |||     | |  |      || | |  ||   |  | |      |  | ||    
-TGCTCTTGGAGCAGCAAAGGGTCTTGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTTATTTACCGTGATTTTAAAACATCTAATATACTGCTAGATGCTgtaagttttaagtccttgaattggattacgtattgcacaccacacgattcacatcttgtaattttgtatattatgctactcttgcag

upper sequence: GLYMA18G49060.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 4
TTGCACTTGGTGCTGCAAAAGGTCTTGCTTTTCTCCATGAAGAAGCTCAAAGACCTGTAATCTATCGTGATTTTAAGACGTCTAATATTCTATTAGATGCggtatgtgagttaaccaggaaaaaggtttttaattattttctatccatcctccaacataaaaacataaaaacataattgttttta
 ||| ||||||||||| ||||| || |||||||| |||||||||||| ||||||| ||||||||||| || || || || || |||||||| |||||||||||| |  | |  |     |       | ||||  || ||| || |||      ||| |   |  |   |||||| || |||   
-TGCTCTTGGTGCTGCGAAAGGCCTCGCTTTTCTTCATGAAGAAGCTGAAAGACCAGTAATCTATCGGGACTTCAAAACCTCCAATATTCTTTTAGATGCGgtaagcaactatattgaaa-------tgttaaaaatattc-attcat------acaaatgtatttgctaacatatttttttcag

upper sequence: GLYMA18G49060.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G150806_T01 (Zea mays), 5'ss of exon 4
TTGCACTTGGTGCTGCAAAAGGTCTTGCTTTTCTCCATGAAGAAGCTCAAAGACCTGTAATCTATCGTGATTTTAAGACGTCTAATATTCTATTAGATGCggtatgtgagttaaccaggaaaaaggtttttaattattttctatccatcctccaacataaaaacataaaaacataattgttttta---
 |||||| || || ||||| ||||| ||||| || |||||||||||  |||| || || || |||||||||||||| || |||||||| ||| | ||||||||| || | | ||   |   |     | |   |    || | | ||| ||    |||       | |    ||| ||| || ||   
-TGCACTGGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGTCCAGTCATTTATCGTGATTTTAAAACATCTAATATACTACTGGATGCGgtaagttaatgaataggattatgcagtgtgtgtctcattatttacatactgttgcatc------ttatgttata-ttgcttgtatag

upper sequence: GLYMA18G49060.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 4
TTGCACTTGGTGCTGCAAAAGGTCTTGCTTTTCTCCATGAAGAAGCTCAAAGACCTGTAATCTATCGTGATTTTAAGACGTCTAATATTCTATTAGATGCggtatgtgagttaaccaggaaaaaggtttttaattattttctatccatcctcca-acataaaaacataaaaacata-attgttttta---
 |||||| || || ||||| ||||| ||||| || |||||||||||  ||||||| || || ||||| |||||||| || |||||||| ||  | |||||||||    ||||||    ||| | | || |  | | | | ||   |||  || | | |     |||| | |   || |||| || ||   
-TGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTATCGCGATTTTAAAACATCTAATATACTGCTGGATGCGgta----agttaat---gaataggattatgcagtgtgtgct--tcatgatctatatactgctacatcatatgttatattgcttgtacag

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|17400429|gb|BM177211.1|BM177211
EST:     AGACCTGTAATCTATCGTGATTTTAAGACGTCTAATATTCTATTAGATGC                         GGAATACAATGCCAAGCTCTCTGATTTTGGACTCGCCAAAGATGGTCCTGA
genomic: AGACCTGTAATCTATCGTGATTTTAAGACGTCTAATATTCTATTAGATGCggtatgtgag ... attgtttttaGGAATACAATGCCAAGCTCTCTGATTTTGGACTCGCCAAAGATGGTCCTGA
EST: gi|9820922|gb|BE556432.1|BE556432
EST:     AGACCTGTAATCTATCGTGATTTTAAGACGTCTAATATTCTATTAGATGC                         GGAATACAATGCCAAGCTCTCTGATTNTGGACTCGCCAAAGATGGTNCTGA
genomic: AGACCTGTAATCTATCGTGATTTTAAGACGTCTAATATTCTATTAGATGCggtatgtgag ... attgtttttaGGAATACAATGCCAAGCTCTCTGATTTTGGACTCGCCAAAGATGGTCCTGA