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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGGATATTTGGTCGTTTGGGATTACTGCGTTGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAGgtaggctgtaatcgttgtctgtttgctgcatgtgttcagaatggttctgttctttgagttttaggtttcttgtgatttgtaatgtgctggtgtgatagggattcactgtttgttttgtgtgtag

Basic information

species Glycine max
transcript GLYMA20G35970.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35970.2 (Glycine max), 5'ss of exon 3
lower sequence: AT4G24100.1 (Arabidopsis thaliana), 5'ss of exon 5
GGCGGATATTTGGTCGTTTGGGATTACTGCGTTGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAGgtaggctgtaatcgttgtctgtttgctgc--atgtgttcagaatggttctgttctttgagttttaggtttcttgtgatttgtaatgtgctggtgtgatagggattcactgtttgttttgtgtgtag
||| ||||| ||||| ||||| || || ||  | || ||||| |||||||| || |||||||| || |||||||||||||||||     ||| |  ||     ||| | ||  ||||||  |   ||  ||| ||      ||| |   | | || |  |||     ||    |                                  
GGCTGATATCTGGTCATTTGGTATAACAGCACTTGAATTGGCCCATGGTCATGCACCTTTCTCAAAATATCCTCCCATGAAGgtgcttagtatttctttctctttttcggcttatgtgtatattttgcatctattaaaacggttctgattcttttcttttttccctggttacag----------------------------------

upper sequence: GLYMA20G35970.2 (Glycine max), 5'ss of exon 3
lower sequence: AT4G10730.1 (Arabidopsis thaliana), 5'ss of exon 6
GGCGGATATTTGGTCGTTTGGGATTACTGCGTTGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAGgtaggctgtaatcgttgtctgtttgctgcatgtgttcagaatggttctgttctttgagttttaggtttcttgtgatttgtaatgtgctggtgtgatagggattcactgtttgttttgtgtgtag
||| ||||| ||||| ||||| || || ||| ||||||||||||| ||||| || |||||||| || ||||| || |||||||       || || || |   ||   |  |||| || ||||  | |||  |   |   ||   |||  |                                                       
GGCTGATATATGGTCTTTTGGAATAACGGCGCTGGAGTTGGCTCACGGTCATGCACCTTTCTCAAAATATCCCCCTATGAAGg-------tattcattatt--ttccttatatgtattaagaacagatcttattccttttttcctggtaacag-----------------------------------------------------

upper sequence: GLYMA20G35970.2 (Glycine max), 5'ss of exon 3
lower sequence: PP1S27_49V6.1 (Physcomitrella patens), 5'ss of exon 5
GGCGGATATTTGGTCGTTTGGGATTACTGCGTTGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAGgtaggctgt--aatc---------gttgtctgt--ttgctgcatgtg---ttcagaatggttctgttctttgagttttaggtttcttgtga----tttg--taatgtgctggtgtgatagggattcactgtttgttttgtgtgtag----------------------------------------------
||| || || ||||||||||||||||||||  ||||| | || |||||||| || || ||||| || |||||||| || |||||  | |||  | |          || | | ||  |  |||    ||   |    ||  | ||| ||||||  || ||||||||      |    ||||  |||| | ||   |   | |      | || | | | || || |                                                
GGCTGACATATGGTCGTTTGGGATTACTGCACTGGAGCTTGCACATGGTCATGCTCCATTCTCAAAATATCCTCCAATTAAGgtgagatgtttagtttcatgataagtagcccgtagtaactgggactgcaatattcaacagctctattctttt-gtgttaggttttggccaaatcttttgaataatctacttacgccgtggtttacaagtggtcgctctgagtttccgtatttttagatcaaaccagcgactgacgacgaaagagtgcaacag

upper sequence: GLYMA20G35970.2 (Glycine max), 5'ss of exon 3
lower sequence: PP1S227_24V6.1 (Physcomitrella patens), 5'ss of exon 5
GGCGGATATTTGGTCGTTTGGGATTACTGCGTTGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAGgtaggctgtaatcgttgtctgtttgctgcatgtgttcagaatggttctgttctttgagttttaggtttcttgtg-atttgtaatgtgctggtgtgatagggattcactgtttgttttgtgtgtag
 || || || ||||| |||||||| ||||| |||||| | ||||||||||| || || |||||||||||||||||| ||||||||   | ||| ||| | | | ||| |  ||   || |  ||   || | |    ||||||  | ||        |    |||    |     | | |   || |||                  
AGCTGACATCTGGTCCTTTGGGATAACTGCTTTGGAGCTTGCTCATGGTCATGCACCCTTCTCCAAGTATCCTCCCTTGAAGgtactat-taaccgtagac-gcttg-taaat---tttaatatcactcagatgc--gagtttctgattgtaaaaataaaaataacacacacacat-acacacatacacac----------------

upper sequence: GLYMA20G35970.2 (Glycine max), 5'ss of exon 3
lower sequence: PP1S407_24V6.1 (Physcomitrella patens), 5'ss of exon 5
GGCGGATATTTGGTCGTTTGGGATTACTGCGTTGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAGgtaggctgt---aatcgttgtctgtttgctgcatgtgttcagaatggttctgttctttgagttttaggtttcttgtgatttgtaatgtgctggtgtgatagggattcactgtttgttttgtgtgtag
 || || || ||||| ||||| || |||||  ||||| | ||||||||||| || ||||| |||||||| ||||| |||||||||  |  |    |  |||  |  |   ||| ||||  |    |  | |||      | |   |  || |  |  || |    || ||  |  | |  |                            
AGCCGACATATGGTCTTTTGGAATAACTGCTCTGGAGCTTGCTCATGGTCATGCACCTTTTTCCAAGTACCCTCCTATGAAGgtacacattttagactgttaaccataccctggatgtcatacacactgctcttcaggattaccctctggctcttcatgttcatgaacgttttcctttactg---------------------------

upper sequence: GLYMA20G35970.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ34917 (Selaginella moellendorffii), 5'ss of exon 5
GGCGGATATTTGGTCGTTTGGGATTACTGCGTTGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAGgtaggctgtaatcgttgtctgtttgctgcatgtgttcagaatggttctgttctttgagttttaggtttcttgtgatttgtaatgtgctggtgtgatagggattcactgtttgttttgtgtgtag
||| ||||| ||||| || ||||| |||||||||||||||||||| || || || || || || || |||||||| ||||||||   ||| ||  | || | ||||   |||     |||     | | |||  |   ||                                                                  
GGCTGATATCTGGTCCTTCGGGATCACTGCGTTGGAGTTGGCTCACGGGCATGCACCGTTTTCGAAATATCCTCCGATGAAGgt---ctgaaa--gctg-cggttttgagcaatctctcac----gctgtgtcttgccag------------------------------------------------------------------

upper sequence: GLYMA20G35970.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ10073 (Selaginella moellendorffii), 5'ss of exon 5
GGCGGATATTTGGTCGTTTGGGATTACTGCGTTGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAGgtaggctgtaatcgttgtctgtttgctgcatgtgttcagaatggttctgttctttgagttttaggtttcttgtgatttgtaatgtgctggtgtgatagggattcactgtttgttttgtgtgtag
||| ||||| ||||| || ||||| |||||||||||||||||||| || || || || || || || |||||||| ||||||||   ||| ||||   |   ||||   |||     |||     | | |||  |   ||                                                                  
GGCTGATATCTGGTCCTTCGGGATCACTGCGTTGGAGTTGGCTCACGGGCATGCACCGTTTTCGAAATATCCTCCGATGAAGgt---ctgaaatctgcg---gttttgagcaatctctcac----gctgtgtcttgccag------------------------------------------------------------------

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|6567234|gb|AW234845.1|AW234845
EST:     TGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAG                         GTTCTTTTGATGACCATTCAGAATGCTCCTCCGGGGCTTGATTATGATCGT
genomic: TGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAGgtaggctgta ... ttgtgtgtagGTTCTTTTGATGACCATTCAGAATGCTCCTCCGGGGCTTGATTATGATCGT
EST: gi|10845866|gb|BF068902.1|BF068902
EST:     TGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAG                         GTTCTTTTGATGACCATTCAGAATGCTCCTCCGGGGCTTGATTATGATCGT
genomic: TGGAGTTGGCTCATGGTCACGCGCCTTTCTCCAAGTATCCTCCCATGAAGgtaggctgta ... ttgtgtgtagGTTCTTTTGATGACCATTCAGAATGCTCCTCCGGGGCTTGATTATGATCGT