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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcttccttgtgcatgttttgtggacttgtagtagtttctatttgatgcagctaacttagtgatggtcgcaatatctttaatgcttatgacttatcagcagattctaattgcaatgtaactactatttgtttttcctaaaggggagggaagttttctaaaaaaaaaatccgttttgcagTGTCTGTGCAGCTGTACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAGTATTTCTTTGGATGATGGCAGTTCTTACCATATTGTGTGCATCATATTG

Basic information

species Glycine max
transcript GLYMA01G42940.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G42940.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G63690.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgagcttccttgtgcatgttttgtggacttgtagtagtttctatttgatgcagctaacttagtgatggtcgcaatat-ctttaatgcttatgacttatcagcagattctaattgcaatgtaactactatttgtttttcctaaaggggagggaagttttctaaaaaaaaaatccgttttgcagTGTCTGTGCAGCTGTACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAGTATTTCTTTGGATGATGGCAGTTCTTACCATATTGTGTGCATCATATTG
                                                 |    |    |   |     ||   |||| |||      || | | ||      |   |   |||| ||    |  | ||| ||| |    |||          | | ||||            |  ||  ||||||| | |||||| ||||| |||   |||||||||||||||||||| ||||| ||| | ||| | |||||| ||  |||||| || |||||||| |||||
------------------------------------------------gtatgtccttttctatttcaatcaggatatgcttccgaagttgtcattt-----taagcttgtattgtaa----atcattatatgtatcggttaactc----aacaatcttctg-----------cacttgtcagTGTCGGCGCAGCTTTACTCCCCAAGACGACCAGCTGTTGACGTAGCTGAAGTCTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTG
















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|209699604|gb|BW655710.1|BW655710
EST:     ACTAGATGCAGGTACAAGGCTGGAAAAAATGCTGACAACTACTTCATCTG                         TGTCTGTGCAGCTGTACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAG
genomic: ACTAGATGCAGGTACAAGGCTGGAAAAAATGCTGACAACTACTTCATCTGgtgagcttcc ... cgttttgcagTGTCTGTGCAGCTGTACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAG
EST: gi|209729790|gb|BW658595.1|BW658595
EST:     ACTAGATGCAGGTACAAGGCTGGAAAAAATGCTGACAACTACTTCATCTG                         TGTCTGTGCAGCTGTACT
genomic: ACTAGATGCAGGTACAAGGCTGGAAAAAATGCTGACAACTACTTCATCTGgtgagcttcc ... cgttttgcagTGTCTGTGCAGCTGTACT
EST: gi|213614822|gb|DB956958.1|DB956958
EST:     ACTAGATGCAGGTACAAGGCTGGAAAAAATGCTGACAACTACTTCATCTG                         TGTCTGTGCAGCTGTACTCG
genomic: ACTAGATGCAGGTACAAGGCTGGAAAAAATGCTGACAACTACTTCATCTGgtgagcttcc ... cgttttgcagTGTCTGTGCAGCTGTACTCG
EST: gi|298165710|gb|HO008681.1|HO008681
EST:     ACTAGATGCAGGTACAAGGCTGGAAAAAATGCTGACAACTACTTCATCTG                         TGTCTGTGCAGCTGTACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAG
genomic: ACTAGATGCAGGTACAAGGCTGGAAAAAATGCTGACAACTACTTCATCTGgtgagcttcc ... cgttttgcagTGTCTGTGCAGCTGTACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAG
EST: gi|192315508|gb|FK009688.1|FK009688
EST:     ACTAGATGCAGGTACAAGGCTGGAAAAAATGCTGACAACTACTTCATCTG                         TGTCTGTGCAGCTGTACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAG
genomic: ACTAGATGCAGGTACAAGGCTGGAAAAAATGCTGACAACTACTTCATCTGgtgagcttcc ... cgttttgcagTGTCTGTGCAGCTGTACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgtttttcctaaaggggagggaagttttctaaaaaaaaaatccgttttgcagTGTCTGTGCAGCTGTACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAGTATTTCTTTGGATGATGGCAGTTCTTACCATATTGTGTGCATCATATTG
                             ttctaaa  putative branch site (score: 2)
                                           tccgtttt  putative PPT
                        aagttttctaaaaaaa  TA-rich tract