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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgttatactgcaccttttaacctttgaatgtgggaattacttacattaaatatgtaccatatgtttttgtgtaataacttaacagatggaaattatgaaatatggtgtagtgcttgatacccttgagtcattcttttgagcattgatgttttcatgctatgcagCATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCTGTTCACATTCCAAACCACAAATTTACAGTGAATGTTGTGCGGAACCTTA

Basic information

species Glycine max
transcript GLYMA09G33170.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G33170.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G10490.2 (Arabidopsis thaliana), 3'ss of exon 10
gtgtgttatactgcaccttttaacctttgaatgtgggaattacttacattaaatatgtaccatatgtttttgtgtaataacttaacagatggaaattatgaaatatggtgtagtgcttgatacccttgagtcattcttttgagcattgatgttttcatgc-tatgcagCATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCTGTTCACATTCCAAACCACAAATTTACAGTGAATGTTGTGCGGAACCTTA
                                ||  ||||  || |  ||| ||       || ||  ||| | |  || |||    |   |  |||   | |  ||      | ||| | |      ||  ||  || |||   |   ||||   |||| | | ||||||||||| ||||||||||||||||| || ||||||||||| || || ||  ||||||| |||||||| || || ||||| ||||| ||| | |||||||
--------------------------------gttagaatctctgagcttagatg------atgtgaattt-tttcctagcttcggtgcacgtcattgccatacctgaacgtttccttaaaattagctagctatctttctgaat-tgcttgttgcaatgcatttacagCATGTTGGTTGGTGGTCACCAACAATCATAAGAGGTGAAGACCGCGAGGCAATTCACATCCCAAACCATAAGTTCACAGTTAATGTCGTGAGAAACCTTA

upper sequence: GLYMA09G33170.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv00s0313g00020.t01 (Vitis vinifera), 3'ss of exon 10
gtgtgttatactgcaccttttaacctttgaatgtgggaattacttacattaaatatgtaccatatgtttttgtgtaataacttaacagatggaaattatgaaatatggtgtagtgcttgatacccttgagtcattct-tttgagcattgatgttttcatgcta--tgcagCATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCTGTTCACATTCCAAACCACAAATTTACAGTGAATGTTGTGCGGAACCTTA
                                                                     ||  | |||   ||  |   | ||| |   | || ||| ||   |||    |    |  | |  |  | | |||   |||||  | |  || |   | |||||||| || |||||||||||||||||  | |||||||||||||||||||| || ||||||||||||||||| || || |||||||||||| | || || |
-------------------------------------------------------------------agttaagaaatcggttgcctctttgaatt---ggaaaatgatgagatgccaagtcagatgcatttttattgtctgaattttgataatcttttgttgcctacagCATGTGGGATGGTGGTCACCAACAATAGTAAGAGGTGAAGATCGTGAAGCAGTCCACATTCCAAACCACAAGTTCACTGTGAATGTTGTGAGAAATCTCA

upper sequence: GLYMA09G33170.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S79_156V6.1 (Physcomitrella patens), 3'ss of exon 9
gtgtgttatactgcaccttttaacctttgaatgtgggaattacttacattaaatatgtaccatatgtttttgtgtaataacttaacagatggaaattatgaaatatggtgtagtgcttgatacccttgagtcattcttttgagcattgatgttttcatgctatgcagCATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCTGTTCACATTCCAAACCACAAATTTACAGTGAATGTTGTGCGGAACCTTA
                                             | |   ||  ||  ||  | |||| | |||      |||       || | ||      |  |||||    ||  |||        |  |||  ||||  | | ||||   ||  |   ||| ||||||| |||||||| || ||  | |||||||| || |||||||||||||||||||||||||||||||| || |  || | ||| || || ||  | |
---------------------------------------------agacgtaaggtgctccg-aagtttctctgtg-----ttagtgatctgacacta------acagtgta---ttttgtactg------cgatctactgagactcggtgttgaaat-ttgcacagTATGTTGGTTGGTGGTCTCCGACTGTGATTAGAGGAGATGATCGTGAAGCTGTTCACATTCCAAACCACAAGTTCAGTGTAAGTGTAGTCCGTAATTTGA

upper sequence: GLYMA09G33170.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S28_223V6.1 (Physcomitrella patens), 3'ss of exon 9
gtgtgttatactgcaccttttaacctttgaatgtgggaattacttacattaaatatgtaccatatgtttttgtgtaataacttaacagatggaaat---tatgaa-atatggtgtagtgcttgatacccttgagtcattcttttgagcattgatgttttcatgctatgca--gCATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCTGTTCACATTCCAAACCACAAATTTACAGTGAATGTTGTGCGGAACCTTA
                                                                           | ||| | || | |  | |||   |||| | || |     | ||  || |||    |  || ||  ||||        | || | ||   ||| |  ||||||||| |||||||| |||||  | ||| |||| || |||||||||||||| || |||||||| |||||||| |  ||||  || || || ||  | |
-------------------------------------------------------------------------agagtaattcaaaacaccgcaatatgtatgtatatttctgacattgactggtacatacggctccttgatttgcttggacttattattataacatgtatagCATGTTGGGTGGTGGTCTCCAACTGTGATTCGAGGAGATGATCGTGAAGCTGTCCATATTCCAAATCACAAATTCAGTGTGAGCGTAGTCCGCAATTTGA

upper sequence: GLYMA09G33170.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S58_129V6.1 (Physcomitrella patens), 3'ss of exon 5
gtgtgttatactgcaccttttaacctttgaatgtgggaattacttacattaaatatgtaccatatgtttttgtgtaataacttaacagatggaaattatgaaatatggtgtagtgcttgatacccttgagtcattcttttgagcattgatgttttcatgctatgcagCATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCTGTTCACATTCCAAACCACAAATTTACAGTGAATGTTGTGCGGAACCTTA
                                                          |    ||| | ||  | ||    |  |   ||    || || | | |     |||||    | |   ||   ||  | |  | |  |||||  |||| |  |||  |||||||| || |||||||| |||||  | ||| |||| || |||||||||||||||||||||||||| ||||| ||||  ||||  || || || ||| | |
----------------------------------------------------------attccatgatatt-cgcaa-gtttcgaactatattgatgatcagacacca-atagtg----aaatatttatttcgatttacttaaaattga--ttttaaatctacacagCATGTCGGATGGTGGTCTCCAACTGTGATTCGAGGAGATGATCGTGAAGCTGTTCACATTCCAAATCACAAGTTTAGTGTGAGCGTAGTTCGTAACTTGA

upper sequence: GLYMA09G33170.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ18544 (Selaginella moellendorffii), 3'ss of exon 6
gtgtgttatactgcaccttttaacctttgaatgtgggaattacttacattaaatatgtaccatatgtttttgtgtaataacttaacagatggaaattatgaaatatggtgtagtgcttgatacccttgagtcattcttttgagcattgatgttttcatgctatgcagCATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCTGTTCACATTCCAAACCACAAATTTACAGTGAATGTTGTGCGGAACCTTA
                                                                                       | ||  |  ||     | || | |||    || ||  ||   | | |||           ||||||||||         |||||||||||||||||| || ||| |||| ||||| |||||||| |||||||| || || || |||||||| || ||  |||  ||||| || ||  | |
-----------------------------------------------------------------------------------gttggttgatacgtaaattgtgtgttatagcaaatggtaatctaatgcctttc-----------gatgttttca---------gCATGTTGGCTGGTGGTCTCCTACAGTTATCAGAGGCGAAGATCGCGAAGCTGTGCATATACCCAACCACAAGTTCACGATGAGCGTTGTCCGCAATTTAA

upper sequence: GLYMA09G33170.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ36514 (Selaginella moellendorffii), 3'ss of exon 6
gtgtgttatactgcaccttttaacctttgaatgtgggaattacttacattaaatatgtaccatatgtttttgtgtaataacttaacagatggaaattatgaaatatggtgtagtgcttgatacccttgagtcattcttttgagcattgatgttttcatgctatgcagCATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCTGTTCACATTCCAAACCACAAATTTACAGTGAATGTTGTGCGGAACCTTA
                                                                                       | ||  |  ||     | || | |||    || ||  ||   | | |||           ||||||||||         |||||||||||||||||| || ||| |||| ||||| |||||||| |||||||| || || || |||||||| || ||  |||  ||||| || ||  | |
-----------------------------------------------------------------------------------gttggttgatacgtaaatcgtgtgttatagcaaatggtaatctaatgcctttc-----------gatgttttca---------gCATGTTGGCTGGTGGTCTCCTACAGTTATCAGAGGCGAAGATCGCGAAGCTGTGCATATACCCAACCACAAGTTCACGATGAGCGTTGTCCGCAATTTAA

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|193591339|gb|FK547784.1|FK547784
EST:     AATGGATTCAAACAAAGATTGAAGGATATGAGGTTTCTGGTACAGTCGAG                         CATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCT
genomic: AATGGATTCAAACAAAGATTGAAGGATATGAGGTTTCTGGTACCGTCGAGgtgtgttata ... tgctatgcagCATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcttgatacccttgagtcattcttttgagcattgatgttttcatgctatgcagCATGTTGGCTGGTGGTCACCAACAATTATTAGAGGTGAAGATCGTGAAGCTGTTCACATTCCAAACCACAAATTTACAGTGAATGTTGTGCGGAACCTTA
                               cattgat  putative branch site (score: 4)
                                       ttttcat  CT-rich tract
                    attctttt  TA-rich tract