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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtctatcaactggccctctttttcccatatccactgttatatttcatgttattaccatttctgctgtctttacttcccagcaatgtcactctatagatgagtaacaccttttgactaatttgaagtttagtctgaatgtttgttcattaaaactgttactgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCTAAAACAG

Basic information

species Glycine max
transcript GLYMA02G45610.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G45610.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os05g29010.1 (Oryza sativa), 3'ss of exon 8
gtttgtctatcaactggccctctttttcccatatccactgttatatttcatgttattaccatttctgctgtctttacttcccagcaatgtcactctatagatgagtaacaccttttgactaatttgaagtttagtctg-aatgtttgttcattaaaactgttactgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCTAAAACAG------------------------------------------
                                                                                     || |  |  | ||  |  || |     ||    | | |   || || | | |   ||   | |||   |   ||| | |  | | |||||||||| || |||||||||||||| |||||||| |||||  |||| || || ||||                                          
----------------------------------------------------------------------------------gtaaaagcaaaacgatcaac-agcacatgtttgcagcaagtcataaattcattttctgattcctattcgacatt-ctggtgc-atatcagGTTTCTAAGCACATGAATCATTTGCTGAAAGCACCCTTTTGCATACACCCGAAGACAGGTTAGACCCAAGTATATTTCCTATTTTTTCATCTAATGAATG

upper sequence: GLYMA02G45610.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os05g29010.2 (Oryza sativa), 3'ss of exon 11
gtttgtctatcaactggccctctttttcccatatccactgttatatttcatgttattaccatttctgctgtctttacttcccagcaatgtcactctatagatgagtaacaccttttgactaatttgaagtttagtctg-aatgtttgttcattaaaactgttactgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCTAAAACAG
                                                                                     || |  |  | ||  |  || |     ||    | | |   || || | | |   ||   | |||   |   ||| | |  | | |||||||||| || |||||||||||||| |||||||| |||||  |||| || || ||||
----------------------------------------------------------------------------------gtaaaagcaaaacgatcaac-agcacatgtttgcagcaagtcataaattcattttctgattcctattcgacatt-ctggtgc-atatcagGTTTCTAAGCACATGAATCATTTGCTGAAAGCACCCTTTTGCATACACCCGAAGACAG

upper sequence: GLYMA02G45610.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv02s0025g01350.t01 (Vitis vinifera), 3'ss of exon 11
gtttgtctatcaactggccctct-------ttttcccatatccactg------ttatatttcatgttattaccatttctgctgtctttacttccca-gcaatgtcactctatagatgagtaacaccttttgactaatttgaagttta-gtctgaatgtttgttcattaaaactgttactgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCTAAAACAG
||||||  |    ||| || |||       ||||  | || |   ||      || |  ||   || || |     ||    |||   ||     |  |||| |   |    |    ||||  || || ||    || || | |||  |    ||       | |      |||||  || || ||||||| ||||| ||||| |||||||| || |||||||||||||| || || |||||||
gtttgtacaatttctgcccttctcaacaaattttttcttaccacttgagtacattgtccttggggtaatcaatcggtccagagtccagacaatggatacaatattctttgggactcaagtacaacattctgc---atctggattttgtgcactaactcacactgaccttt-ctgtttgtgcttcagGTTTCAAAACACATGAACCATTTGCTAAAGGCACCATTTTGTGTGCACCCAAAAACAG

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|208220404|gb|GE019836.1|GE019836
EST:     GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAG                         GTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCT
genomic: GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAGgtttgtctat ... actgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCT
EST: gi|193359948|gb|FK326720.1|FK326720
EST:     CATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTTAGATATGGAG                         GTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCT
genomic: CATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGC-TAGATATGGAGgtttgtctat ... actgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCT
EST: gi|298181814|gb|HO025989.1|HO025989
EST:     GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAG                         GTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCT
genomic: GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAGgtttgtctat ... actgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCT
EST: gi|208179591|gb|GD973594.1|GD973594
EST:     GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAG                         GTTTCTAAACATATGAATCATTTGCTTAAAGC
genomic: GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAGgtttgtctat ... actgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGC
EST: gi|151404405|gb|EV274215.1|EV274215
EST:     GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAG                         GTTTCTAAACATATGCATCATTTGCTTAAAGCACCATTTTGTGTACATCCT
genomic: GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAGgtttgtctat ... actgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCT
EST: gi|58023254|gb|CX709995.1|CX709995
EST:     GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAG                         GTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCT
genomic: GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAGgtttgtctat ... actgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCT
EST: gi|19271087|gb|BM887343.1|BM887343
EST:     GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAG                         GTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTT
genomic: GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAGgtttgtctat ... actgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTT
EST: gi|207792263|gb|GD764169.1|GD764169
EST:     GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAG                         GTTTCTAAACATA
genomic: GCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAGgtttgtctat ... actgttttagGTTTCTAAACATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gactaatttgaagtttagtctgaatgtttgttcattaaaactgttactgttttagGTTTCTAAACATATGAATCATTTGCTTAAAGCACCATTTTGTGTACATCCTAAAACAG
 gactaat  putative branch site (score: 2)
                                              ctgtttt  putative PPT
                          tttgttcattaaaa  TA-rich tract