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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatattactataatcataattaaatgtcctatttgtttaattaatattgaggagtttactctatctcttttattttctcctgtccaatctgattatag

Basic information

species Glycine max
transcript GLYMA18G17240.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os02g50620.1 (Oryza sativa), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgt-atattactataatcataattaaatgtcctatttgtttaattaatattgaggagtttactctatctcttttatt-ttctcctgtccaatctgattatag
 |||| || ||||| || ||||| ||||||||||| || ||||| ||||| || ||||| ||||||||  | |||||||| || |||||||||||||| |   | || | | | |   ||||| |     | || |||||||          ||   | |       ||||| || |    | | | | |       
GTTCTTGAAATGGATACCTACAGGTACCATGGCCATTCTATGTCAGATCCCGGAAGCACTTACCGTACCAGGGATGAGATCTCAGGTGTAAGACAGgtgaggatcctgtgaccct---taaatttg----tggtgtaattaacgccagatgtttggtttttaacgaattattgttttatcatgccaacag-------

upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os06g13720.1 (Oryza sativa), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatattactataatcataattaaatgtcctatttgtttaattaatattgaggagtttactctatctcttttattttc-tcctgtccaatctgattatag--------------
||||| ||||||||||| ||||||||||| || ||||| ||||| ||||| || ||||| ||||| ||  | ||||| ||| | ||  ||||||||||      |   |||||  ||     | | |      |  | |          |  ||| | ||   |    |  ||| | |||   ||  || || |                
ATTCTTGAGATGGACACCTACAGATACCACGGACACTCTATGTCAGATCCAGGGAGCACTTACCGCACCAGAGATGAAATTGCAGGCATAAGACAGgt------caggaatcaggatggccggccatgagctctcgagtctcgactcaaaacttaatttacaccgaagacattcattctgagtaagttgtttgtgttatgttaccaacag

upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G361693_T01 (Zea mays), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatattactataatcataattaaatgtcctatttgtttaattaatattgaggagtttactctatctcttttattttctcctgtc-caatctgattatag
 | || |||||||| || |||||||||||||||||||| ||||| ||||| || ||||| ||||| ||  | ||||||||||| ||||| || ||||||   |                  |||  |  |  || | |    | |    ||  | || |   | ||| | ||  |  |||  |||| | || |   
GTCCTTGAGATGGATACCTACAGATACCATGGCCACTCTATGTCAGATCCAGGAAGCACTTACCGCACCAGGGATGAGATTTCAGGTGTCAGGCAGgtaaggt------------------tgttttgatctttcagtatggaatttaaagcatgctatgcgtgtttcaattaattgtgttacaatatcatcag--

upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G140150_T01 (Zea mays), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtat-attactataatcataattaaatgtcctatttgtttaattaatattgaggagtttactctatctcttttattttctcctgtccaatctgattatag
 | || |||||||| || ||||| |||||||||||||| ||||| ||||| || ||||| ||||| ||  | ||||||||||| ||||| || ||||||| |||  | ||||| |   | | | |   ||||    ||| |  ||  | | |||     ||  ||| |||   | || |                 
GTCCTTGAGATGGATACCTACAGGTACCATGGCCACTCTATGTCAGATCCAGGAAGCACTTACCGCACCAGGGATGAGATTTCAGGTGTCAGGCAGgtatgattgttttaatctt---tcagtttggaattta---aatcatgatataagtgttacaattaattctgttacaatatcatcag--------------

upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G027627_T01 (Zea mays), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgt--atattactataatcataattaaatgtcctatttgtttaattaatattgaggagtttactctatctcttttattttctcctgtccaatctgattatag-------
|| || ||||||||||| ||||||||||| || ||||| ||||| ||||| || ||||| ||||| ||| | ||||||||  ||||  |||| |||||    ||  |  |  ||      |  ||    || ||||          |||  | |||  | |   |  |  ||  |||      | |    |||||         
ATCCTTGAGATGGACACCTACAGATACCACGGGCACTCAATGTCAGATCCAGGTAGCACCTACCGCACAAGGGATGAGATCGCTGGCATAAGGCAGgtcaggatggcagttgtctcggc-acttgagaaatgtgttcctcaggggatgaacaatttttttttctttctgaatgatctgtctgtctacggaattatgacacacag

upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G59900.1 (Arabidopsis thaliana), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatatta----ctataatcataattaaatgtcctatttgtttaattaa-tattgaggagtttactctatctcttttattt-tctcctgtccaatctgattatag
||||| ||||||||||||||||| ||||| || |||||||||||||||||||| |||||||||||||| || |||||||| |||||||| || |||||   |||    || ||     ||    || || |  | |   | | |  |||||| ||  |  |   |        |||| | | ||   | || ||| |  ||
ATTCTTGAGATGGACACATACAGGTACCACGGTCACTCCATGTCTGATCCTGGGAGCACATACCGTACCCGAGATGAGATATCTGGTGTGAGGCAGgttcgttagtctctttacctgaaaaatcatttcttggtcgaggactcagctattgatgaaatctcaaaagtcaaaacatttatgtgctactctatatgact-cag

upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G24180.1 (Arabidopsis thaliana), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatattactataatcataattaaatgtcctatttgtttaattaatattgaggagtttactctatctcttttattttctcctgtccaatctgattatag
|| || ||||||||||| ||||||||||| || ||||| |||||||| || || ||||| |||||||| |||||||| || ||||| || |||||||| || | || |  ||||   |||   | ||  |      ||    | |  | |  ||  |  |||| |    |||||  | ||   | ||  |||   
ATCCTTGAGATGGACACTTACAGATACCACGGTCACTCTATGTCTGACCCAGGAAGCACTTACCGTACTCGTGATGAAATCTCTGGCGTGAGACAGgt-tagttctttgttcatttgtaagactactgctccaaccatatgcaatttgaaactt-tttaatctgtaaagttttcatcggtgttacct--ttag--

upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv01s0026g00990.t01 (Vitis vinifera), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatat----tactataatcataattaaatgtc-----ctatttgtttaattaatattg-aggagtttactctatctcttttattttctcctgtccaatctgattatag
||||| || |||||||| || || |||||||| |||||||||||||||||||| ||||| ||||||||||||||||||||||||||||| |||||||| |||    ||  ||| | | | ||   |||      | |   || | || ||| |   || ||||   |  ||    | | |||  |  | |    |||        
ATTCTTGAAATGGACACTTATAGGTACCATGGTCACTCCATGTCTGATCCTGGGAGCACCTACCGTACACGTGATGAGATTTCTGGTGTGAGACAGgtgtatatgatatgatattgacatttttttgtttgctgcaaagcgtgttatcaatttcctagaagttccatgcattaaatatttttggtggtatgttttctag------

upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0018g01940.t01 (Vitis vinifera), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatat-tactataatcataattaaatgtcctatttgtt-taattaatattgaggagtttactctatctcttttattttctcctgtccaatctgattatag-----
||||| || |||||||| || || |||||||| |||||||||||||||||||| || ||||||||||| |||||||||||||||||||| |||||||| ||| | |||| ||| | |   | | |  | |||| |  | |   | ||||  | ||| ||  |  | |  | | ||     ||       |  | |       
ATTCTTGAAATGGACACTTATAGGTACCATGGTCACTCCATGTCTGATCCTGGGAGTACATACCGTACGCGTGATGAGATTTCTGGTGTGAGACAGgtgtatatgctatgatcttgac--atttttttgtttgctgcagtgtgtgttgac-aatttcctggaagtttcatgtattaaatagttttggtggcatgttttctag

upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S47_1V6.1 (Physcomitrella patens), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatattactataatcataattaaatgtcctatttgtttaattaatattgaggagt--ttactctatc----tcttttatttt--ctcctgtccaatctgattatag-------------------------------------------------
 |  | |||||||||||||| || || ||||| || |||||||| || || |||||||| ||||| || ||||| ||||| ||||||||  | || |||  || |  |     |   |   |      || |   || | | || ||    |    | | ||      | |  || |     |  ||  |||      | | |                                                 
GTCTTGGAGATGGACACATATAGGTATCATGGACATTCCATGTCCGACCCAGGCAGCACTTACCGAACTCGTGACGAGATCTCTGGTGTTCGTCAAgtaagtttcagttgaacttgctcttttcgaagttagcacaaattacatggaaagatgaccaatttacaaggatttggtactgcggttattgctcaagtatgctgttggtgaccagactatgttttcagtctaacatctttctactcgtgtcaacag

upper sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S201_84V6.1 (Physcomitrella patens), 5'ss of exon 4
ATTCTCGAGATGGACACATACAGATACCATGGCCACTCCATGTCTGATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatattactat---aatcataattaaatgtcctatttgtttaattaatattgaggagtttactctatctcttttattttctcctgtccaatctgattatag-------------------------
 || | |||||||| || |||||||| ||||| ||||| |||||||| || |||||||| ||||| || ||||||||||| ||||||||| ||||||| |  | |||    | |     || | ||   |     | |  |   |   ||||   ||  |   |  |  | | || ||     |||   | ||| |                           
GTTTTGGAGATGGATACGTACAGATATCATGGTCACTCTATGTCTGACCCAGGCAGCACCTACCGAACCCGTGATGAGATCTCTGGTGTACGACAGgtgtgattctaatcaagttgacgttcactgcattgaaactgttttcggttaggagggtattgattgtttgccctgagttgctgagacccagatttattttcttacacttttttgctgatgtatacag

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|298196684|gb|HO041427.1|HO041427
EST:     ATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAG                         GAGCGTGATCCAATTGAGAGAGTAAGAAAGCTACTATTGACTCACGAGATT
genomic: ATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatattact ... ctgattatagGAGCGTGATCCAATTGAGAGAGTAAGAAAGCTACTATTGACTCACGAGATT
EST: gi|254334329|gb|GR844114.1|GR844114
EST:     ATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAG                         GAGCGTGATCCAATTGAGAGAGTAAGAAAGCTACTATTGACTCACGAGATT
genomic: ATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatattact ... ctgattatagGAGCGTGATCCAATTGAGAGAGTAAGAAAGCTACTATTGACTCACGAGATT
EST: gi|19937096|gb|BQ081145.1|BQ081145
EST:     ATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAG                         GAGCGTGATCCAATTGA
genomic: ATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatattact ... ctgattatagGAGCGTGATCCAATTGA
EST: gi|254322978|gb|GR835693.1|GR835693
EST:     ATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAG                         GAGCGTGATCCAATTGAGAGA
genomic: ATCCTGGCAGCACATACCGTACACGTGATGAGATTTCTGGTGTAAGACAGgtatattact ... ctgattatagGAGCGTGATCCAATTGAGAGA