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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattattcttttttatatgaatacaaatacaaaaactaatgaaactatgatgtgtactattcatttaaatggatcttgctcttgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTTTTGGATCCTTCCATCTTTTCTTCCTATGCATCCAG

Basic information

species Glycine max
transcript GLYMA07G00330.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0054g01520.t01 (Vitis vinifera), 3'ss of exon 7
gtattattcttttttatatgaatacaaatacaaa--aactaatgaaac--tatgatgtgtacta---ttcatttaaatggatcttgctcttgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTTTTGGATCCTTCCATCTTTTCTTCCTATGCATCCAG
||||      ||   | |  | | || || ||    |   |||| |    | ||   || ||||    | || | |       |    | |||||||  | ||  | ||||| ||||  |||||||||||||||||||||||||||||| || | || |||  ||||||||| |||||||
gtatggccacttgaaacacaagttcacattcatcctatacaatgcattcttgtgtgatggactaaatcttatatgatattgcttcttccgtgtagATTTTTGGCTTGTTTGACTGGTCAGGAAGCAACCCAATGCCCCCAGAGTTTTGGCTCTTCCCTTCTCGTCTTCCTAT-CATCCAG

upper sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0054g01220.t01 (Vitis vinifera), 3'ss of exon 4
gtattattcttttttatatgaatacaaatacaaa--aactaatgaaac--tatgatgtgtacta---ttcatttaaatggatcttgctcttgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTTTTGGATCCTTCCATCTTTTCTTCCTATGCATCCAG
||||      ||   | |  | | || || ||    |   |||| |    | ||   || |||     | || | |     | |    | |||||||  | ||  | ||||| ||||  |||||||||||||||||||||||||||||| || | || |||  |||||| ||||||||||
gtatggccacttgaaacaaaagttcacattcatcctatacaatgcattcttgtgtcatggactgaatcttatatgatattgtttcttccgtgtagATTTTTGGCTTGTTTGACTGGTCAGGAAGCAACCCAATGCCCCCAGAGTTTTGGCTCTTCCCTTCTCGTCTTCCCATGCATCCAG

upper sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0054g01230.t01 (Vitis vinifera), 3'ss of exon 4
gtattattcttttttatatgaatacaaatacaaa--aactaatgaaac--tatgatgtgtacta---ttcatttaaatggatcttgctcttgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTTTTGGATCCTTCCATCTTTTCTTCCTATGCATCCAG
||||     |||   | |  | | || || ||    |   |||| |    | ||   || |||     | || | |     | |    | |||||||  | ||  | ||||| ||||  ||||||||||||||||||||||||||||   || | || |||  |||||||||| ||||||
gtatggccatttcaaacacaagttcacattcatcctatacaatgcattcttgtgtgatggactgaatcttatatgatattgtttcttccgtgtagATTTTTGGCTTGTTTGACTGGTCAGGAAGCAACCCAATGCCCCCAGAGTTTTCACTCTTCCCCTCTCATCTTCCTATGAATCCAG

upper sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0054g01360.t01 (Vitis vinifera), 3'ss of exon 1
gtattattcttttttatatgaatacaaatacaaa--aactaatgaaac--tatgatgtgtacta---ttcatttaaatggatcttgctcttgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTTTTGGATCCTTCCATCTTTTCTTCCTATGCATCCAG
||||     |||   | |  | | || || ||    |   |||| |    | ||   || |||     | || | | ||  ||||   | |||||||  | ||  | ||||| ||||  |||||||||||||||||||||||||||||| || | || |||  |||||||||||||||||
gtatggccatttgaaacacaagttcacattcatcctatacaatgcattcttgtgtgatggactgaatcttatatgattgcttctt--ccgtgtagATTTTTGGCTTGTTTGACTGGTCAGGAAGCAACCCAATGCCCCCAGAGTTTTGGCTCTTCCCTTCTCGTCTTCCTATGCATCCAG

upper sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0054g01290.t01 (Vitis vinifera), 3'ss of exon 4
gtattattcttttttatatgaatacaaataca------aaaactaatgaaactatgatgtgtactat-tcatttaaatggatcttgctcttgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTTTTGGATCCTTCCATCTTTTCTTCCTATGCATCCAG-----
||||     ||||  | |  | | || || ||        || | ||     | || ||      || | || | ||      |    | || || || | ||  ||||||| | ||  |||||||||||||||||||||||||||||| || | || ||||||||||||||||||||||     
gtatggacattttaaacacaagttcatattcatcctatgcaatttattcttgtgtgttggactgaatcttatatgaaattgcttcttccatgcagCTATTTGGCTTATTTGACTAGTCAGGAAGCAACCCAATGCCCCCAGAGTTTTGGCTCTTCCCTTCTTTTCTTCCTATGCATCCAGGTTAA

upper sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0054g01480.t01 (Vitis vinifera), 3'ss of exon 5
gtattattcttttttatatgaatacaaatacaaaaacta-atgaaactatgatgtgtactattcatttaaatg-gatcttgctctt-----gtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTTTTGGATCCTTCCATCTTTTCTTCCTATGCATCCAG
||||      ||   | |  | | || || ||     || |    | | |  ||||    | | | |   ||  ||| |||||  |     ||||||  | ||  | ||||| ||||  |||||||||||||||||||||||||||||| |  | || |||  |||||||||||||||||
gtatggccacttgaaacacaagttcacattcatcctatacaatgcattcttgtgtgatggactgaatcttatatgatattgcttcttccgtgtagATTTTTGGCTTGTTTGACTGGTCAGGAAGCAACCCAATGCCCCCAGAGTTTTGGCTTTTCCCTTCTCGTCTTCCTATGCATCCAG

upper sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0054g01410.t01 (Vitis vinifera), 3'ss of exon 4
gtattattcttttttatatgaatacaaatacaa---aaactaatgaaactatgatgt-gtacta---ttcatttaaatggatcttgctcttgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTTTTGGATCCTTCCATCTTTTCTTCCTATGCATCCAG
||||     ||||  | |  ||| || || ||    |  | | | |  ||    ||| | |||     | || | ||    | |    | || || || | ||  ||||||| ||||  |||||||||||||||||||||||||||||| |||| || ||||||||||||||||||||||
gtatggccattttaaacacaaattcatattcatcctatgccatttattcttgtgtgttggactgaatcttatatgaaattgtttcttccatgcagCTATTTGGCTTATTTGACTGGTCAGGAAGCAACCCAATGCCCCCAGAGTTTTGGCTCCTCCCTTCTTTTCTTCCTATGCATCCAG

upper sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0054g01390.t01 (Vitis vinifera), 3'ss of exon 4
gtattattcttttttatatgaatacaaatacaaa--aactaatgaaac--tatgatgtgtact-attcattta-aatggatcttgctct-tgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTTTTGGATCCTTCCATCTTTTCTTCCTATGCATCCAG
||||      ||   | |  | | || || ||    |   |||| |    | ||   || ||| | || | ||  ||    |||  ||  |||||||  | ||  | ||||| ||||  |||||||||||||||||||||||||||||| |  | || |||  |||||||||||||||||
gtatggccacttgaaacacaagttcacattcatcctatacaatgcattcttgtgtgatggactgaatcttatatgatattccttcttccgtgtagATTTTTGGCTTGTTTGACTGGTCAGGAAGCAACCCAATGCCCCCAGAGTTTTGGCTTTTCCCTTCTCGTCTTCCTATGCATCCAG

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|33388879|gb|CA852086.1|CA852086
EST:     TCATGGGGGTGTAACACATATACCTTCATGGGGAAAA-CTTGGGCTT-CG                         ATACTCGG-GTATTTGAATGGGGCGGAAGCACCCCA-TGCCCCCAAAGTT
genomic: TCATGGTGGTGTAACACATATACCTTCATGGGGAAAAACTTGG-CTTTCGgtattattct ... gctcttgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTT
EST: gi|193491583|gb|FK454231.1|FK454231
EST:     ATCATGGTGGTGTAACACATATACCTTCATGGGGAAAAACTTGGCTTTCG                         ATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAA
genomic: ATCATGGTGGTGTAACACATATACCTTCATGGGGAAAAACTTGGCTTTCGgtattattct ... gctcttgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaactaatgaaactatgatgtgtactattcatttaaatggatcttgctcttgtagATACTCGGTGTATTTGATTGGTGCGGAAGCAACCCAATGCCCCCAGAGTTTTGGATCCTTCCATCTTTTCTTCCTATGCATCCAG
 aactaat  putative branch site (score: 2)
                                         tcttgctctt  putative PPT
                      tactattcatttaaat  TA-rich tract