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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaattttaacttaaatttgtcacgtatgcatactacaatgaaaatccttgattccattgcattggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT

Basic information

species Glycine max
transcript GLYMA17G13440.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G13440.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 3'ss of exon 4
gtaagtaattt---taacttaaatttgtcacgtatgcatactacaatgaaaatccttgattccattgca---------ttggttaaatgggcttatt--ccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
|| |||  | |   | ||||     | || | || | |       ||  |  |   || ||   ||||          |||  || ||  |||  |     |||||||||||| ||||| ||||||||||||||||||||||| ||||||||||||
gtgagtcctatggttcacttttccgtttcccttaagtaactgttgatctatctgtgtgctttacttgcgcaatattgcttgtatatataagctggtctattttgcagTTGTGTTCAAATTCGGAACTGGTTTGACTATCGTAACCATATCTGTATT

upper sequence: GLYMA17G13440.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G179308_T03 (Zea mays), 3'ss of exon 4
gtaagtaattttaacttaaatttgtcacgtatgcatactacaatgaaaatccttgattccattgcattggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
|| |||  |  |   |    |    | | | || || ||    | | | || |    |   ||| ||   | ||   ||  ||||  |||||||||||| ||||| ||||||||||||||||||||||| ||||||||||||
gtgagtt-tgctggttcggttaacacccttctgtatgct----ttacattcataagattgcttgtatatat-aagctggtctatt--ttgcagTTGTGTTCAAATTCGGAACTGGTTTGACTATCGTAACCATATCTGTATT

upper sequence: GLYMA17G13440.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G063792_T04 (Zea mays), 3'ss of exon 4
gtaagtaattttaacttaaatttgtcacgtatgcatact-acaatgaaaatccttgattccattgcattggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
|| |||  |  |   | |  |    |   ||||| | || ||  | | ||     |||| | ||| ||    |||   ||  ||||  |||||||||||| ||||| ||||||||||||||||||||||| ||||||||||||
gtgagtt-tgctggttcagttagcacctatatgcgtgcttacgttcataa-----gattgc-ttgtata---taagctggtctatt--ttgcagTTGTGTTCAAATTCGGAACTGGTTTGACTATCGTAACCATATCTGTATT

upper sequence: GLYMA17G13440.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtaattttaacttaaatttg--tcacgtatgcatactacaatgaaaa------------tccttgattccatt--gcattggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
||||||| | |    | |  |||   ||| | ||   || |   |||||              |||  |||||  ||  |||  ||||||||     |||||||||||||||||| ||||| ||||||||||||||||||||||| ||||||||||||
gtaagtactgtctgttgactttttcttcatgcatcactaatctgatgaagtcaagcatagttttccaagattcttttttgcaaaggttaaatcattgtattccttgcagTTGTGTACAAATTCGGAACTGGTTTGACTATCGTAACCATATCTGTATT

upper sequence: GLYMA17G13440.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 4
----------gtaagtaattttaact--taaatttgtcacgtatgcatactacaatgaaaatccttgattccattg-cattggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
             |||  | ||||||  | ||  || ||| | |    |||   || |   |   | |     ||| || |||||||||| | |||||| |||||||||||||||||||||||||||||||||||||||||| ||||||||||||
gtgagtgtttactagtgttgttaactccttaacctgccac-tgttggcactcttataagcttttctaagcattttgtcaatggttaaatgagtttattctttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATT

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|209715198|gb|BW668526.1|BW668526
EST:     GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCG                         TTGTGTGCAAAT
genomic: GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCGgtaagtaatt ... ttccttgcagTTGTGTGCAAAT
EST: gi|207776596|gb|GD747468.1|GD747468
EST:     AGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCG                         TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
genomic: AGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCGgtaagtaatt ... ttccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
EST: gi|192295348|gb|FG986002.1|FG986002
EST:     GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCG                         TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
genomic: GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCGgtaagtaatt ... ttccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
EST: gi|17518814|gb|BM187856.1|BM187856
EST:     GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCG                         TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
genomic: GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCGgtaagtaatt ... ttccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
EST: gi|9986568|gb|BE660676.1|BE660676
EST:     GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCG                         TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
genomic: GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCGgtaagtaatt ... ttccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
EST: gi|23064326|gb|BU579099.1|BU579099
EST:     GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCG                         TTGTGTGCAAATACGGAACTGGTTTGACTAT
genomic: GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCGgtaagtaatt ... ttccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTAT
EST: gi|9901661|gb|BE610629.1|BE610629
EST:     GAAATAGATGTGTTGCAACAGCTTGGTAAACACGATAAACGAGGCAATCG                         TTGTGTGCAAATACGGGACTCGTTTGACTATCGTCATCATATCTGTATT
genomic: GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCGgtaagtaatt ... ttccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
EST: gi|23064408|gb|BU579181.1|BU579181
EST:     GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCG                         TTGTGTGCAAATACGGAACTGGTTTGACTATC
genomic: GAAATTGAGGTGTTGCAACAGCTTGGTAAACACGATAAAGGAGGCAATCGgtaagtaatt ... ttccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacaatgaaaatccttgattccattgcattggttaaatgggcttattccttgcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATCTGTATT
            ccttgat  putative branch site (score: 5)
                                         cttattcctt  putative PPT
                                ttaaat  TA-rich tract