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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatgttagtctcttttctttgaacatttgggtctatatcttatttgtagctaaaacaattaatatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCA

Basic information

species Glycine max
transcript GLYMA06G44340.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os02g05340.1 (Oryza sativa), 3'ss of exon 20
----------gtaagatgttagtctct---tttctttgaacatttgggtcta-tatcttatttgtagctaaaac---aattaatatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCA
           |||  | |||  |       | |     | |||| |  ||| |   |   ||     | | ||   ||||||  | ||  |||| ||| | || || |||||| | || |||||||| || ||||||||| |||| ||||| ||||||||||||||||||||||| || ||||| ||  |  
gtttgtattcataactttttaacccacgacatacccaatatattttgtcctaattgatggcttacgttttatacctgaattaaatttctctagGCTGCAATCATTTCATTGGGTTTCATTGGTGCTGGTACAAACAATGCTAGAATAGCTGGTATGCTTCGCAATCTTTCAAGTTACTATTACAAAGAAGCTG

upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os09g15750.1 (Oryza sativa), 3'ss of exon 20
gtaag--atgttagtctcttttctttgaacatttgggtctatat---cttatttgtagctaaaacaattaatatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCA
|| ||  |  | | |  |    | |   | |||  | |||||      | || | ||   ||   ||||  ||   | ||||| ||| | || ||| ||||  | ||||| ||||| || |||||||| ||||| ||||| |||||||| || || ||||||||||| ||||| ||  |  
gttagtaacctcactaacaaaacctaccatattaagttctatgagcattgatatttattcaatcaaattggtaca-tgcagGCTGCAATAATCTCCCTGGGCTTGATAGGGGCTGGTACAAACAATGCCCGAATAGCTGGGATGCTTCGGAACCTCTCAAGTTATTATTACAAAGAAGCAG

upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G155384_T02 (Zea mays), 3'ss of exon 20
gtaagatgttagtc--tcttttctttgaacatttgggtctatatcttattt---gtagctaaaacaattaatatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCA
||  | | ||  ||  || ||||    | | |||   |   |||| | | |    ||  |    | |||||  | || ||||| ||| |||| || |||||| | || |||||||| || ||||||||  |||| |||||||||||||||||||||||||||||||||||||| ||  |  
gttcg-tatttatcaatcctttcacctagcctttcctttgttatcatgtatcatatatatgtggctattaaatttctccagGCTGCAATTATCTCATTGGGTTTGATTGGTGCTGGCACAAACAATGCCAGAATAGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTG

upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM5G816609_T01 (Zea mays), 3'ss of exon 6
gtaagatgttagtctcttttctttgaacatttgggtctatatcttat-ttgtagctaaaacaattaatatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCA
||  |    ||   | ||||| | |    |       ||||   ||| || ||  |      |||||  | || ||||| ||| |||| || |||||| | || |||||||| || ||||||||  |||| |||| ||||||||||||||||||||||||||||||||| ||  |  
gttcgtatctatcattttttcctagcctttccttccttatactatatcttatatatctggatattaaatttctccagGCTGCAATTATCTCATTGGGTTTGATTGGTGCTGGCACAAACAATGCCAGAATAGCTGCCATGCTTCGCAATCTTTCAAGTTATTACTACAAAGAAGCAG

upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 20
-----gtaagat-gttagtctcttt--tctttgaacatttgggtctatatcttatttgtagc-taaaacaattaat---atgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCA
     || | |  | ||| || |||  ||| |||  | ||   || |||| ||      | |  | ||  |||  |   || || ||||| || || || ||||||||| | |||||||| || || |||||||||||||||||||||||||| || ||||||||||| ||||||||||| ||  | |
gtatggtgatagagctagcctttttgttctctgagtagttctatcaatatattggcctaaacgcagaaatatttgtgggattctacagGCTGCTGTCATCTCCTTGGGTTTGATAGGTGCGGGTACCAACAATGCTCGAATTGCTGGCATGCTCCGTAATCTTTCAAGCTATTACTACAAAGAAGCTA

upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 20
lower sequence: PP1S414_22V6.1 (Physcomitrella patens), 3'ss of exon 20
-------------------------------------------------------------------------gtaa--gatgttagtctcttttctttgaacatttgggtctatatcttatttgtagctaaaacaattaat--atgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCA
                                                                         ||||  |||    ||   | |  | |   || |     | ||||  | |     |    ||||||| ||  ||| | ||| |||||    | || ||||| || || || ||||| || || ||||| ||||||||||||||||||||||| ||||| || || || ||||||||  | |
gtatttttctttgtggttcctccatcatattctttgttggcattgttgcacaagttcagactcattctttactgtaattgatacctgtaaatctattgtagtcaat-aacaccatatactgtggactgacgtaacaatttatttatgttacagTCGGCAACGGTTTCTTTGGGACTTATTGGAGCTGGGACTAATAATGCCCGAATTGCTGGCATGCTTCGCAACCTTTCTAGCTACTATTACAAGGACCCAA

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|193711290|gb|FK643885.1|FK643885
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|7693027|gb|AW761125.1|AW761125
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|120530135|gb|EH258269.1|EH258269
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|207763019|gb|GD731150.1|GD731150
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATATC-TTAGGGTACTAATAGGTGCT
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTT-GGGT-CTAATAGGTGCT
EST: gi|10847592|gb|BF070244.1|BF070244
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|6566730|gb|AW234362.1|AW234362
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATCTCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|10237756|gb|BE806644.1|BE806644
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATCTCGTTGGGTCTAATAGGTGCTGGAACAAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|10234169|gb|BE803057.1|BE803057
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATCTCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|9440032|gb|BE440543.1|BE440543
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|22521874|gb|BU080685.1|BU080685
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|120492692|gb|EH220859.1|EH220859
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|120530034|gb|EH258168.1|EH258168
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGA
EST: gi|208301986|gb|GE097466.1|GE097466
EST:     TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATG                         GCGGCAGTTATATCCTTGGGTCTAATAGGTGCT
genomic: TGGATACGTTAAGCAGACTTAGCCATGATACTGATTCGGAAGTAGCTATGgtaagatgtt ... tatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgaacatttgggtctatatcttatttgtagctaaaacaattaatatgcttcagGCGGCAGTTATATCCTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCA
                                       aattaat  putative branch site (score: 3)
                                 taaaacaattaatat  TA-rich tract