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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagtgaaggaagaataatctgcttccttttttgttttgcccactcagttccattttaaaagtattggttgaatcttgaccctaaatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC

Basic information

species Glycine max
transcript GLYMA13G42800.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 7
-aaagtgaaggaagaataatctgcttccttttttgttttgcccactcagttccattt--taaaagtattggttgaatcttgaccctaaatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC
 ||| | ||    |||  || ||   | ||| | | |      | |    || || |    || |||||  | || | ||         |||| |   ||||||||| |||||||| || || || |||||||| || |||||||||||||| ||||| || |||||||| || || || ||||||||| || |||| |||||
aaaactcaaatgtgaaatatgtgtaacttttgtggatggagggagtatcatctatctgcccaatgtatttatcga-tattattttattgtattgtg--tgcagAGGTGATAACATCTGCTGAGTTCCACCCTACTCACTGTAATACATTGGCTTATAGTAGCTCAAAGGGCTCCATTCGACTTGTTGACCTGAGGCAGTCAGC

upper sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 7
-aaagtgaagga-agaataatctgcttccttttttgttttgcccactcagttccattttaaaagtattggttgaatcttgaccctaaatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC
   | ||| |   |  || | |||    ||  | | ||   |  |||    | ||| |       ||  ||||   | |||    |  | ||  |||| ||||||| || ||||  || || || ||||| || |||||||||||| |||| |||||||||||||||||||| ||||| ||  ||||  |||| ||||||||
attattgatgtttaagatgacctggaatctgatct-ttacacttactgtaattcatgtcctggtaatatgttgtg-catgatgtaatttgttgatatttcagAGGTCATTACATGTGCGGAGTTCCACCCAACTCATTGTAATACACTGGCCTATAGCAGTTCAAAGGGTTCTATCCGACTCATTGATCTGCGACAATCAGC

upper sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 7
aaagtgaaggaagaataatctgcttccttttttgttttgc--ccactcagttccattttaaaagtattggttgaatcttgaccctaaatattattat-tgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC
   |         | |  | |  |  | | |  |||  |   | |||     |   | |     ||   | |||   ||   | |   |  ||| |  ||||||||| |||||||| || ||||| || ||||| ||||| ||||||||||| ||||| || || ||||| || || || ||||||||  |||||||||||||
---gctttcctttattgtttttatcacatatccgttaagtttctactggtggcatctctgttgttagctgctgatagttattctttggttctatgacatgcagAGGTGATAACATCTGCTGAATTCCATCCTACTCATTGCAATACATTGGCGTATAGTAGCTCTAAGGGCTCCATTCGACTTGTTGATCTGCGGCAATCAGC

upper sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 8
aaagtgaaggaagaataatctgcttccttttttgttttgcccactcagttccattttaaaagtat-tggttgaatcttgaccc-taaatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC
    ||||    | |   ||   ||||| |  |  ||      || | | | ||| |     |   |       || |||       | |||  |||| ||||||| || ||||  || || || || ||  | |||||||||||| |||| ||||| |||||||||||||| ||||| ||| ||||  |||| ||||||||
--tttgaatctggtaggctcattttcctataattattacaagtcttattgctattcttgctttgcgtatgcacttcctgatttgctcacattcatatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGC

upper sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 7
aaagtgaaggaagaataatctgcttccttttttgttttgcccactcagttccattttaaaagtattggttgaatcttgaccctaaatattattat-tgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC
    |     |    |  | |      || ||||  ||  | |||     |   |||     ||     |||    |     |   |  ||| |  ||||||||| |||||||| || ||||| || ||||| || || ||||| ||||||||||| || || ||||| || || || ||||||||  |||| ||||||||
gctttcctttattgtttttatcacatattctttgagtt-tctactggtggcatctttgttgttagctactgatagctatggttttgttctatcacatgcagAGGTGATAACATCTGCTGAATTCCATCCTACCCACTGCAATACGTTGGCATATAGTAGCTCTAAGGGATCCATTCGACTTGTTGATCTGCGCCAATCAGC

upper sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 9
--------------aaagtgaaggaagaataatctgcttccttttttgttttgcccactcagttccattttaaaag-tattggttgaatct-tgaccctaaatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC
              |  || |    ||  |||| || |  ||| |  | |   |        | | |||  |   | |||   | |||| |  |||| ||    |  ||  |||||||||||| ||||||||||||||||| ||||| ||||| ||||  || || ||||||||||| || |||||||| || ||  ||||  |||| || |||||
gtaagccttggtctactgttatctcagtctaatatgttctcttatacggtacccatttatcatgcaattggatgcgatatccttcgaatttacgaccata---ttcgttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC

upper sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 7
aaagtgaaggaagaataatctgcttccttttttgttttgcccactcagttccattttaaaagtattgg----ttgaatcttgaccctaaat----attattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC
       |  |       |||  |   |  |||||| ||    ||    | |  |||||   |  ||     ||||   |||  | || ||    ||| || |||||||||| ||||||||||| || ||||||||||| |||||||| |  || |||||||| |||||||| || |||||||| |||  ||| ||||| || |||||
-------aatatttcctgtcta-tcattcatttgttctgggtgctattctactgtttaatgatgctgcattcttgagcattggacttatattccaattcttcttgcagAGGTGATAACATCAGCGGAGTTTCACCCTACCCATTGTAACATGTTAGCATATAGTAGTTCAAAAGGCTCAATCCGCCTTAATGATTTGCGACAGTCAGC

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|207847156|gb|GD820803.1|GD820803
EST:     AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACGTTGGCAT
genomic: AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAGgtaagcttga ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|207758381|gb|GD727307.1|GD727307
EST:     AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAGgtaagcttga ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|7686354|gb|AW757002.1|AW757002
EST:     AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAGgtaagcttga ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|208191779|gb|GD994625.1|GD994625
EST:     AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAGgtaagcttga ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|18730643|gb|BM525996.1|BM525996
EST:     TTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: TTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAGgtaagcttga ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|19936402|gb|BQ080848.1|BQ080848
EST:     AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAGgtaagcttga ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|207752398|gb|GD725819.1|GD725819
EST:     AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAG                         AGGTTATAACATCAGCAGAATTTCACCCTACACA
genomic: AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAGgtaagcttga ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACA
EST: gi|207701978|gb|GD683852.1|GD683852
EST:     AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACGTTGGCAT
genomic: AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAGgtaagcttga ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|21887329|gb|BQ740542.1|BQ740542
EST:     AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACAGgtaagcttga ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagttccattttaaaagtattggttgaatcttgaccctaaatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC
                                  ccctaaa  putative branch site (score: 3)
                                     taaatattattattgc  TA-rich tract