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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtattcaatcataaaaaaaagaataaaaattaaaagtatggtattaggaacctaaaacacatagatagcacatgttaacaatgccttgattattagtatgataaaaagataacattgtgacatatttattatgaatttgcagGAAGGAACTGCTAATTACTTCAAAGGGCTAATGCTTATTCTTTGCTATCTGATAGTGGCAGCCAGTTTTTATGTACATGTAGATTCCTCTCAATAAGTTA

Basic information

species Glycine max
transcript GLYMA18G08030.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G08030.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os02g04630.1 (Oryza sativa), 3'ss of exon 10
gtttgtattcaatcataaaaaaaagaataaaaattaaaagtatggtattaggaacctaaaacacatagatagcacatgttaacaatgccttgattattagtatgataaaaagataacattgtgacatatttattatgaatttgcagGAAGGAACTGCTAATTACTTCAAAGGGCTAATGCTTATTCTTTGCTATCTGATAGTGGCAGCCAGTTTTTATGTACATGTAGATTCCTCTCAATAAGTTA
                                               | |  ||   |     || ||| ||||    || | ||     ||| | ||  | | | |  |   ||| |   |  | | |  || |   | || ||||| || ||| | ||||   | |||||  | |||||  |||| || ||||||||||| || |||||||||||||||||||  ||| |   |    | |   
----------------------------------------------gtaataaaatcattgtgcaaagagagcattcttttaaaacaaaatgagt-ttgatttcacatgattttaaaacgtt--cttttaaatcacacactttcagGATGGGACTTCAAATTGTGTGAAAGGATTGATGCTATTTCTCTGTTATCTGATAGTAGCTGCCAGTTTTTATGTACATGCTGATCCAAATTCCAAGG---

upper sequence: GLYMA18G08030.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G010779_T01 (Zea mays), 3'ss of exon 11
gtttgtattcaatcataaaaaaaagaataaaaattaaaagtatggtattaggaacctaaaacacatagatagcacatgttaacaatgccttgattattagtatgataaaaagataacattgtgacatatttattatgaat-ttgcagGAAGGAACTGCTAATTACTTCAAAGGGCTAATGCTTATTCTTTGCTATCTGATAGTGGCAGCCAGTTTTTATGTACATGTAGATTC--CTCTCAATAAGTTA
                                                   | ||   |   | ||| | |   |     |||| |||       | |  |       ||   |    |  | |  | ||| || |  |  || ||||| || ||  | || |  ||||||||||| ||||| ||||| ||||| ||||||||||| ||||||||||||||  |||  ||| |   | || ||      
---------------------------------------------------gtactggagtgaaataaacacagctgaggaacagtgctcct-ccactcttgc-----aagatttgtttgcttaagtttttcttgttcacgttacagGATGGGACCTCGAACTGTTTCAAAGGGCTGATGCTGATTCTCTGCTACCTGATAGTGGCTGCCAGTTTTTATGTGTATGCTGATCCAAATATCGATG-----

upper sequence: GLYMA18G08030.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G55730.1 (Arabidopsis thaliana), 3'ss of exon 11
gtttgtattcaatcataaaaaaaagaataaaaattaaaagtatggtattaggaacctaaaacacatagatagcacatgttaacaatgccttgattattagtatgataaaaagataacattgtgacatatttattatgaatttgcagGAAGGAACTGCTAATTACTTCAAAGGGCTAATGCTTATTCTTTGCTATCTGATAGTGGCAGCCAGTTTTTATGTACATGTAGATTCCTCTCAATAAGTTA
                                                ||       ||   |  ||   | |  || |  |  ||  ||   |  | |   |  | |||   |  | |||||     | |  | |   | |||||||||||||  | ||||||||||||||  | ||||| |||||||||||| ||||||| || || ||||| | |||||| | |||| |   ||||       
-----------------------------------------------gtaaatcttgaagctaattacgaaaccaatctcgagtatatctctctcttcaaagttgttaaa---tgtctttgtg-----tgtggtgtttttatgcagGAAGGAACATCGAATTACTTCAAAGGATTGATGCTCATTCTTTGCTATTTGATAGTCGCCGCTAGTTTCTTTGTACACGAAGATCCTCATCAAG------

upper sequence: GLYMA18G08030.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G13320.1 (Arabidopsis thaliana), 3'ss of exon 11
gtttgtattcaatcataaaaaaaagaataaaaattaaaagtatggtattaggaacctaaaacacatagatagcacatgttaacaatgccttgattattagtatgataaaaagataacattgtgacatatttattatgaatttgcagGAAGGAACTGCTAATTACTTCAAAGGGCTAATGCTTATTCTTTGCTATCTGATAGTGGCAGCCAGTTTTTATGTACATGTAGATTCCTCTCAATAAGTTA
                                           |    ||  | ||| ||     || ||  |   |||  | ||||    ||| |||        ||||   | |  |  |||  | | | ||||| |   |||||||||  |  | ||||||||||||||  | ||||| |||||||| ||| ||||||| || |||||||| | |||||| | |||| |    |||       
-------------------------------------------gtggctaaaatccttaagt--ctaaatcac---tgtcgataatgaaaagataattc------caaaatttttaactgatga--tctctgttatgta--cgcagGAAGGGTCATCGAATTACTTCAAAGGATTGATGCTGATTCTTTGTTATTTGATAGTAGCTGCCAGTTTCTTTGTACACGAAGATCCTCACCAAG------

upper sequence: GLYMA18G08030.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv19s0015g01320.t01 (Vitis vinifera), 3'ss of exon 10
gtttgtattcaatcataaaaaaaagaataaaaattaaaagtatggtattaggaacctaaaacacatagatagcacatgttaacaatgccttgattattagtatgataaaaagataacattgtgacatatttattatgaatttgcagGAAGGAACTGCTAATTACTTCAAAGGGCTAATGCTTATTCTTTGCTATCTGATAGTGGCAGCCAGTTTTTATGTACATGTAGATTCCTCTCAATAAGTTA
|||||||||||||      ||  |  | | |  |  | | | || || | |   | |        ||||||       | |  | | |  || ||  |  | | | || ||  ||      |       || || ||  |||||||||||| ||| |||||||||| ||||| |||||||| |||||||||||||| ||||| ||||| ||||| | ||||||||| ||| |  ||  |  ||   
gtttgtattcaat-----gaaggaacacagatctatatactttgatagtggtgtcttg-------tagatatt---catcattatttctctgtttggttatttcacaataactta----catattcctcttgttttg--tttgcagGAAGGCACTTCTAATTACTTTAAAGGACTAATGCTCATTCTTTGCTATCTAATAGTTGCAGCAAGTTTCTTTGTACATGTCGATCCTACTTTAGTAG---

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|51334704|gb|CO978570.1|CO978570
EST:     AGACTGCAGCACTATTTCTTACTGTTATAGTCGTAGCCTTCATGTTACAG                         GAAGGAACTGCTAATTACTTCAAAGGGCTAATGCTTATTCTTTGC
genomic: AGACTGCAGCACTATTTCTTACTGTTATAGTCGTAGCCTTCATGTTACAGgtttgtattc ... gaatttgcagGAAGGAACTGCTAATTACTTCAAAGGGCTAATGCTTATTCTTTGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattattagtatgataaaaagataacattgtgacatatttattatgaatttgcagGAAGGAACTGCTAATTACTTCAAAGGGCTAATGCTTATTCTTTGCTATCTGATAGTGGCAGCCAGTTTTTATGTACATGTAGATTCCTCTCAATAAGTTA
                   agataac  putative branch site (score: 3)
                              tgacatatttattatg  TA-rich tract