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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcccctgaaagctctaccattctttctttgaactataatatctgttttccggtctaagttggcttattcttgactaaactttattattttcttgggcagTGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGAGAAGAATGTCCTACCCTCATCAACAAATCCCACACGTCCTTATACACAT

Basic information

species Glycine max
transcript GLYMA11G37250.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 13
lower sequence: 13114.m00153 (Oryza sativa), 3'ss of exon 15
ttcccctgaaagctctaccattctttctttgaactata-atatctgttttc--cggtctaagttggcttattcttgactaaactttattattttcttgggcagTGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGAGAAGAATGTCCTACCCTCATCAACAAATCCCACACGTCCTTATACACAT
 |    ||  |     ||| |||| |  ||  | | |  ||||  ||||       | ||| | ||  |   ||    || | |||| |   || |    |||||||||||| |||||||| ||||||||||| || || ||||||||||| | ||| |||||  ||||||| ||||||||||| || || || | |||    
-ttttgtgttatacagacccttctattgttatattgtggatattcgtttatgatactgtaaatgggactga-ctaagttataatttactgccttgt-aaacagTGAAGGAGCAGGTGGTGGTCATGCTCCAGACATTATCAAAGTATGTGGAGTGAAAAATGTGTTACCCTCTTCAACAAATCCAACTCGGCCATTTACTTTG

upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G461569_T01 (Zea mays), 3'ss of exon 12
ttcccctgaaagctctaccattctttctttgaactataatatctgttttccggtctaagttggcttattcttgactaaactttattattttcttgggcagTGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGAGAAGAATGTCCTACCCTCATCAACAAATCCCACACGTCCTTATACACAT
|     ||    || |    |       || | || | |||| ||||    | |   |  || |   ||  | |  |   | |     | |  ||| ||||||||| |||||||| || ||||||||||| ||||| ||||| ||||| |  || |||||  | ||||| ||||||||||| || || || | |||    
tattgttgtctactttgtagtgtcaatatttatctgtgatatgtgttaatggattgtacctgtcaattttctcatcatgttcttactgtcttgtggacagTGAAGGTGCTGGTGGCGGTCATGCTCCAGACATCATCAAAGTTTGTGGGGTAAAAAATGTGTTGCCCTCTTCAACAAATCCTACCCGGCCATTTACTTCG

upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G67550.1 (Arabidopsis thaliana), 3'ss of exon 12
-----ttcccctgaaagctctaccattctttctttgaactataatatctgttttccggtctaagttggcttattcttgactaaactttatt------attttcttgggcagTGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGAGAAGAATGTCCTACCCTCATCAACAAATCCCACACGTCCTTATACACAT
     |   | |   | ||||  ||| |     |   |   |    ||  |  |   || | |       ||||   |    |  ||| ||      ||  |  ||| ||||||||| ||||||||||| ||||| ||||||||||| | ||| ||||| | ||| ||||| || || |||||||| || || ||||| || |||||  | 
gttcatcagcttctcacctct-tcatgcacctctcagatgcttccttcactgcttatgtttgaagcaaaatattgaagtgctatttttgtttgttaaatcattctggacagTGAAGGTGCTGGTGGTGGACATGCACCAGATATCATTAGAGTTTGTGGAGTGAAAAATGTACTCCCGTCATCAACCAACCCAACACGGCCATATACGAAA

upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 12
-------ttcccctgaaagctctaccattctttctttgaactataatatctgttttccggtctaagttggcttattcttgac-taaactttattattttcttgggcagTGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGAGAAGAATGTCCTACCCTCATCAACAAATCCCACACGTCCTTATACACAT
        |   ||||||    ||  ||   |||| |   || | | || |   || |  |     ||| |  | | ||||   | |  |   ||| || ||| |||||||||| ||||||||||| ||||||||||||||||| ||||||||||||| ||| ||||| ||||||||||| ||||| || ||||| ||||  ||    
ttttctaattttctgaaaa---taagatagattctatagccttttacattttggtttcttt-----ttgtcacacttttgatgcatatgtcggtatctttttgtgcagTGAAGGTGCTGGTGGTGGTCATGCTCCAGATATCATCAAAGTATGTGGTGTGAAAAATGTTCTACCCTCATCCACAAACCCAACACGGCCTTTCACTTCC

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|208294142|gb|GE092631.1|GE092631
EST:     GAACATACAATTGCTGCATTTAAAGGAAGAACTATTCATACTTACCACAG                         TGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGA
genomic: GAACATACAATTGCTGCATTTAAAGGAAGAACTATTCATACTTACCACAGgtattgttta ... tcttgggcagTGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGA
EST: gi|151394452|gb|EV264323.1|EV264323
EST:     GAACATACAATTGCTGCATTTAAAGGAAGAACTATTCATACTTACCACAG                         TGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGA
genomic: GAACATACAATTGCTGCATTTAAAGGAAGAACTATTCATACTTACCACAGgtattgttta ... tcttgggcagTGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGA
EST: gi|16278014|gb|BI942681.1|BI942681
EST:     GAACATACAATTGCTGCATTTAAAGGAAGAACTATTCATACTTACCACAG                         TGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGA
genomic: GAACATACAATTGCTGCATTTAAAGGAAGAACTATTCATACTTACCACAGgtattgttta ... tcttgggcagTGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttccggtctaagttggcttattcttgactaaactttattattttcttgggcagTGAAGGAGCTGGTGGTGGCCATGCTCCAGATATCATAAAAGTATGTGGTGAGAAGAATGTCCTACCCTCATCAACAAATCCCACACGTCCTTATACACAT
                           gactaaa  putative branch site (score: 2)
                                  ctttattattttctt  CT-rich tract
                   ttattcttgactaaac  TA-rich tract