Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgctatctatactggtggctcatattattgatttacctagtgtgtgttgccatcttagcctaataactatgtgattgaagtcatggtcaatgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCC

Basic information

species Glycine max
transcript GLYMA11G11950.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G11950.3 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G002859_T03 (Zea mays), 3'ss of exon 3
--cgctatctatactggtggctcatattattgatttacctagtgtgtgttgccatcttagcctaataactatgtgattgaagtcatggtcaatgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCC
    |  |   | |       || | | ||   ||     | | | |  |  ||    | ||     |     || || |||| | |   | || | || |||||||||| ||  | ||||| |||||  |||||||||| |||||||||||| | || ||||||||| | || ||||||||||| || ||||| ||||| |
ttacccgtaagtgccataatatcctttcat-acttcgtacatttttttctaacaatcaaacccggacaaagcttgttttaagtgaagcgaactgac-atcagGTTGCAGAACCTCTGAGGGCTATGGTTATGGGAGCTCCTTTGGAGGATGCTCGCCACCTTGCTCAAAGGTACGACAGAATGCGTCAAGAAGCTGAAGCGC

upper sequence: GLYMA11G11950.3 (Glycine max), 3'ss of exon 4
lower sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 4
-cgctatctatactggt-ggctcatattattg-atttacctagtgtgtgttgccatcttagcctaataactatgtgattgaagtcatggtcaatgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCC
 |    ||| ||   ||    | || | || |  || || | || | | |    ||    |  |    ||||      |      ||  | |||     ||||||||| ||||||||| ||||||||||  ||||||||||||||||||||||||| |||||||||||||| |||||||||||||| || ||||| ||||| |
acatactctttaaaagtcaattaatgtcatggtgttcacttggt-tctttctttattgcggtttggctactacaatcatatgtcaatcctgaattt--gttagGTTGCTGAGCCATTACGGGCAATGGTTTTGGGAGCTCCATTGGAGGATGCTAGACATCTTGCTCAACGCTATGACAGAATGCGCCAAGAAGCTGAAGCTC

upper sequence: GLYMA11G11950.3 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 4
-----cgctatctatactggtggctcatattattgatttacctagtgtgtgttgccatcttagcctaataactatgtgattgaagtcatggtcaatgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCC
        ||| || | |        | ||| |  |||||  ||||  || || |    |||   ||||   || || ||  |     || |   |       |||||| ||| || ||||| ||||||||  |||||||||| |||||||||||| | |||||||||||||| ||||| |||||||||  |||||| ||||| |
ttaagacatatttacattatcattctaaattctccatttaa-tagtcagtttttcaccttta---taatgtgta-gttatccagtgtttgattctttatttccagGTTGGAGAACCCTTAAGAGCAATGGTAATGGGAGCTCCCTTGGAGGATGCTCGACATCTTGCTCAACGATATGAGAGAATGCGAATGGAAGCTGAAGCTC

upper sequence: GLYMA11G11950.3 (Glycine max), 3'ss of exon 4
lower sequence: Vv03s0038g00460.t01 (Vitis vinifera), 3'ss of exon 4
cgctatctatactggtggctcatatt--attgatttacctagtgtgtgttgccatcttagcc-taataactatgtgattgaagtcatggtcaatgcc--gatt---agGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCC
         | |   |   |||| ||  |||  |   |||    | | |||| |||  || | |  |||  ||||| | || ||  || | ||||||  ||||   ||||||||||||||||||| || |||||  ||||||||||||||||||||||| | |||||||||||||| ||||| ||||||||||| ||||| ||||| |
-------cgtgccactttttcattttcaattattgctcctctcctat-ttgctatcacaggcgttgtaatcatgtgctcgatgtggtgctgaatgccttgatttctagGTTGCAGAGCCATTAAGAGCGATGGTAATGGGAGCTCCATTGGAGGATGCTCGACATCTTGCTCAACGCTATGAAAGAATGCGACAAGAAGCTGAAGCTC

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|298189490|gb|HO037893.1|HO037893
EST:     CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAG                         GTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGC
genomic: CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatata ... tgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGC
EST: gi|298176009|gb|HO015414.1|HO015414
EST:     CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAG                         GTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT
genomic: CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatata ... tgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT
EST: gi|298180588|gb|HO025675.1|HO025675
EST:     CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAG                         GTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT
genomic: CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatata ... tgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT
EST: gi|15285961|gb|BI469852.1|BI469852
EST:     CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAG                         GTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT
genomic: CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatata ... tgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgccatcttagcctaataactatgtgattgaagtcatggtcaatgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCC
               taataac  putative branch site (score: 1)
               taataactat  TA-rich tract