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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGCAAGTCTCCCATTGATGATCAGCAGTGGCTCACTTACTGGGTTCTCTACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTCCTTGAATGgtattaacccttttttttcttcttgtttatgttaattgttttggaaggttgtgagtactcattaaatgccataataaacttgagacttgagatttttggg...

Basic information

species Glycine max
transcript GLYMA17G10730.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G10730.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os06g12220.1 (Oryza sativa), 5'ss of exon 3
AGAGCAAGTCTCCCATTGATGATCAGCAGTGGCTCACTTACTGGGTTCTCTACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTCCTTGAATGgtattaacccttttttttcttcttg-----tttatgttaattgttttggaaggttgtgagtactcattaaatgccataataaacttgagacttgagatttttggg
| |  || |||||  ||||||||||||| ||||||||||||||||| || ||||| || |||||  | ||||| ||||| ||||||  |||  |||||||||| | ||| ||||  |   ||  |     ||| | ||   |   |       || ||  ||    || | | || | | ||| || ||| ||   |        
AAACAAAATCTCCTGTTGATGATCAGCAATGGCTCACTTACTGGGTGCTGTACTCGTTTATCACTTTGTTTGAGCTTACTTTTGCTCCAGTAATTGAATGgtaatgaccattttcctgggtcaggagattttttttttgtcttactcatttccttttgtttagcatttgatttccctcaaaaagttcagatttagcaaca-----

upper sequence: GLYMA17G10730.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G862101_T02 (Zea mays), 5'ss of exon 3
AGAGCAAGTCTCCCATTGATGATCAGCAGTGGCTCACTTACTGGGTTCTCTACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTCCTTGAATGgta--ttaacccttttttttcttct-----tgtttatgttaattgttttggaagg--ttgtgagtactcattaaatgccataataa-acttgagacttgagatttttggg--------------------------------------------------------
|||  ||   |||  | |||||||||||||||||||||||||||||  | ||||| ||  ||||  | ||||| || || ||||||  | |  | || |||||  |||    | |  |    ||      |||| || || || ||||| |  |   |||||| || |    ||      |  |    | ||    | |   | |||||                                                         
AGACAAAAAATCCTGTAGATGATCAGCAGTGGCTCACTTACTGGGTGTTGTACTCATTTGTCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaattacggttctggtcatgtcccaatgtgttcatttttatggtttttgtggcctttgtgattatttgcaaacattattggtggtgcatggatatagctgtgtttggtgcatcaagttggtgaaaaggaaactagatatgctcactttagatctttatttgcag

upper sequence: GLYMA17G10730.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G047860_T02 (Zea mays), 5'ss of exon 3
AGAGCAAGTCTCCCATTGATGATCAGCAGTGGCTCACTTACTGGGTTCTCTACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTCCTTGAATGgtat-taaccctt----ttttttcttcttgttt---atgttaattgttttggaagg---ttgtgagtactcattaaatgccataataaacttgagacttgagatttttggg--------------------------------------------------------
|||  ||   |||  | |||||||||||||||||||||||||||||  | ||||| || |||||  | ||||| || || ||||||  | |  | || |||||  |||| |||    |  | ||    ||| |   || |||  |  |||||  ||   | |||| || |    |||    |            |  |  || | ||| |                                                         
AGACAAAAAATCCTGTAGATGATCAGCAGTGGCTCACTTACTGGGTGTTGTACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataacacttgtggtcatgtcccaatgtgttcaattttatgttctttgggtgggcttcgtgattatttgg-aaacattactggtggtacatggatatagctgtttagtgcaacaagttggtgaatagaaaactaaatatgcttactttagatctttgtttgcag

upper sequence: GLYMA17G10730.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G130548_T03 (Zea mays), 5'ss of exon 3
AGAGCAAGTCTCCCATTGATGATCAGCAGTGGCTCACTTACTGGGTTCTCTACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTCCTTGAATGgtat--taacccttttttttcttct-tgtttatgttaattgttttggaaggttgtgagtactcattaaatgccataataaacttgagacttgagatttttggg
| |  || ||| |  | ||||||||||| |||||||| |||||||| || ||||| || ||||| || || || || |||||||||   || || ||||||||    |||    |||   |     ||   || | |   | ||| |     ||||     |    |  | |||||||   | |  |   |    |||||   
AAACAAAATCTGCTGTGGATGATCAGCAATGGCTCACGTACTGGGTGCTGTACTCATTTATCACTCTATTCGAGCTCACCTTTGCTCCGGTACTCGAATGgtaaaacaacaaactttcagcacaagtgggcatttcaccagctttagttccatgtgca-gtttggaacttaccataatggtcatatgtggtatatttttta--

upper sequence: GLYMA17G10730.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv17s0000g05990.t01 (Vitis vinifera), 5'ss of exon 3
AGAGCAAGTCTCCCATTGATGATCAGCAGTGGCTCACTTACTGGGTTCTCTACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTCCTTGAATGgtattaacccttttttttcttcttgtttatgttaattgttttggaaggttgtgagtactcattaaatgccataa-taaacttgagacttgag--atttttggg-
||| |||||| ||  ||||||||||||| |||||||| ||||||||| | || ||  ||||||||||||| || || |||||||||| |||| ||||||||||  | |   |||| |  ||     ||     |||    ||||  | |  |   | ||| || | ||   ||  |   | | |  |||||   | |  |||  
AGACCAAGTCCCCTGTTGATGATCAGCAATGGCTCACATACTGGGTTTTGTATTCTATGATCACACTCTTCGAGCTCACCTTTGCTAAAGTCATTGAATGgta--atcgtattttatgtttaacactttccccaatgtggttgg--gctcttttcttctccttgagtggagtatcttttcctcattcttgaatcaataatggaa

upper sequence: GLYMA17G10730.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ35580 (Selaginella moellendorffii), 5'ss of exon 2
AGAGCAAGTCTCCCATTGATGATCAGCAGTGGCTCACTTACTGGGTTCTCTACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTCCTTGAATGgtattaacccttttttttcttcttgtttatgttaattgttttggaa---ggttgtgagtactcattaaatgccataataaacttgagact-tgagatttttggg
|||||            || |||   ||||||||||||||||||||||| ||||||||  | || ||| | || ||| | || |  |  || || |  |||||  | || |  |   ||       | |    | ||  ||| |     | |  || || ||||  |||   |    |    ||   ||| || |||       
AGAGCCCCAACAAGGAAGACGATGTCCAGTGGCTCACTTACTGGGTTCTTTACTCCTTTGTTACGCTCCTCGAGCTTGCATTGGGAACCGTTCTGGCCTGgta--atccgtgctcgctcgatcctctcaaaacattttcttttgctttcgatgctgggttctca--aaacctctctttggttttctcactctgtgatag-----

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|10237423|gb|BE806311.1|BE806311
EST:     ACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTGCCTTGAATG                         GATTCCAATATGGCCTTATGCAAAGCTGATTGCAACCTGCTGGTTGGTCC
genomic: ACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGT-CCTTGAATGgtattaaccc ... tgtatttcagGATTCCAATATGGCCTTATGCAAAGCTGATTGCAACCTGCTGGTTGGTCC
EST: gi|58024372|gb|CX711113.1|CX711113
EST:     TACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTCCTTGAATG                         GATTCCAATATGGCCTTATGCAAAGCTGATTGCAACCTGCTGGTTGGTCCT
genomic: TACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTCCTTGAATGgtattaaccc ... tgtatttcagGATTCCAATATGGCCTTATGCAAAGCTGATTGCAACCTGCTGGTTGGTCCT