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'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcattttcttatgcaacttttattttattttatattcttgtgtatggtctgtgatctgtgttactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA

Basic information

species Glycine max
transcript GLYMA06G01520.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 3'ss of exon 4
gtttcattttcttatgcaacttttattttattttatattc-ttgtgtatggtctgtgatctgtgttactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
                           ||  |  || ||  ||||   |   | ||  ||||   | |||   |||||  |  | | | | | | ||  |||| |    ||||||||||||| || |||||  | |||||||||||||| ||||||| ||||||||| ||||| ||||| ||  |||| || || || |||| ||||  ||
--------------------------gttggtgaatgttgattgttactttgcagttctctgcagt-cta---tggatctttgaaagtgtctgtgttacatttgttg-cagGTTATCATCGTGACCAGCTCGTTGATGAAGGACATGAATAGCAAGACTGATATGTATCGAGCTAATGCAATAAGAGTTCTTTGCCGCATCATTGACTCAA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 3'ss of exon 4
gtttcattttcttatgcaacttttattttattttatattcttgtgtatggtctgtgatctgtgttactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
                      | |    |   | | ||    |  |||   | | |  ||| |     | |   ||| |||||  | |   | ||  |      || |||||||||| |||||||||||  | ||||| || |||||||||||||  ||||||||||| || ||||| ||  |||| |||||| | || | ||| || |
---------------------gtcaaaggaaactgtttttagatccatgaattataacttgtttcttgtattgtcattctaaattgtttgaattttacac-----aacagGTTATCATAGTCACAAGCTCATTAATGAAAGATATGAACAGCAAGACGGATATGTACCGTGCCAATGCTATCAGAGTTCTGTGTAGAATAATTGATGGCA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G178618_T01 (Zea mays), 3'ss of exon 4
gtttcattttcttatgcaacttttattttattttatattcttgtgtatggtctgtgatctgtgttactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
            |  |  ||| ||  ||| |  ||| |  ||  | |     ||||   ||||  | | ||||  |||       |   |||| ||   |       ||||| ||||| || ||||||||| | |||||||||||||| ||||| | |||||||||||| |||||||| ||| |||| || |||||||| | ||||  ||
-----------gttggtgactattggtttctactatgtggtttggcaaataatgtggaatgtggaaatgactttcatt-------tgtgatctgttgggt------gtagGTCATCATAGTAACAAGCTCTTTGATGAAGGACATGAATAGCAAAACTGATATGTACCGTGCAAATGCTATTAGAGTTCTTTGTCGTATTATTGACTCAA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G012501_T01 (Zea mays), 3'ss of exon 4
gtttcattttcttatgcaacttttattttattttatattcttgtgtatggtctgtgatctgtgt-tactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
                     || | |  ||  | | |||   || ||    |||  |   ||  | ||||  |   | | | ||  |  | || | | ||| |  ||||||| ||||| |||||||||||  | |||||||||||||| |||||||  ||||||||||| || ||||| ||| |||| || ||| | || | ||| || |
--------------------gttaaataaatgatgttttcagatgaatacaatgtttttgatgccttctaatctaattaaaagatggttgagctttatgattgt--aatagGTCATCATAGTCACAAGCTCATTGATGAAGGACATGAATAGCAAGACAGATATGTACCGTGCCAATGCTATTAGAGTTCTTTGTAGAATAATTGATGGTA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G036034_T01 (Zea mays), 3'ss of exon 4
gtttcattttcttatgcaacttttattttattttatattcttgtgtatggtctgtgatctgtgttactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
            |  |  |   ||  ||  |  ||| |  ||  | |     ||||   ||||    | ||||  |||       |   |||| ||   |       ||||| ||||| || ||||||||| | |||||||||||||| ||||| |  ||||||||||| ||||| || ||| |||| || |||||||| |  |||  ||
-----------gttggtgaacattggttgctactatgtggttcggcaaataatgtggaatgtggggatgacttccatt-------tgtgatctattgggt------gtagGTCATCATAGTAACAAGCTCTTTGATGAAGGACATGAATAGCAAAACCGATATGTACCGTGCAAACGCTATTAGAGTTCTTTGTCGTATTATCGACTCAA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 3'ss of exon 3
gtttcattttcttatgcaacttttattttattttatattcttgtgtatggtctgtgatctgtgttactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
            | || || ||||| |  |||| | || |  |   || ||| |   |   |||   ||  ||   | |||| |  |   | | ||          ||||||||||||||| ||||||||||| |||||||| ||||| || || ||||||||||| ||||||||||| || || || || || || || |  |||||||
-----------gtctgtaaattttactcaatttca-atac--gaacatcgtc-gcacttattgtaggtatattttctgataagttgttggttttttcgccc-----atagGTTATCATCGTAACAAGCTCTCTGATGAAGGATATGAATAGTAAAATTGATATGTATCGAGCAAATGCTATCCGTGTCCTCTGCCGGATAATAGACGGAA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 4
gtttcattttcttatgcaacttttattttattttatattcttgtgtatggtctgtgatctgtgttactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
           | |    | | || |||||||   | ||  | ||||    || | || ||||  |          |  | | |  | |||   ||  || |  ||| ||||||| || || || ||||| || |||||||||||||| ||||||| ||||||||| ||||||||||| ||||| || || ||||| || || || ||||
---------gttaaattgattgttgttttatt---tgtttgtttgtaccaacttt-atttgtgaaa--------agtgctgactggtttataattt--atatacaaa-agGTTATTATTGTGACTAGCTCACTTATGAAGGACATGAATAGCAAGACTGATATGTATCGAGCAAATGCTATTCGGGTTCTCTGTCGAATAACGGATGGAA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S276_96V6.1 (Physcomitrella patens), 3'ss of exon 4
gtttcattttcttatgcaacttttattttattttatattcttgtgtatggtctgtgatctgtgttactaacttggattataaatattctatctctttaatttttaaat--agGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
     |  ||   ||  |      |||  ||   ||||      || ||  |  |  | |   | ||  |   || | || |  ||  || |      |  | | | |  |||||||||| || ||||||||| | |||||||| |||||||||||||  ||  | || || |||||||||||  | || |||||||| ||||| |||||  
-----agcttgacatagag-----attagatacgatatgtgaaggtctgaacatt--ttttcatgacccagaaggttgatcacaatattaaccaacagaagtctgattccagGTTATCATTGTGACAAGCTCTTTGATGAAGGATATGAACAGCAAGACAGACCTTTATCGTGCAAATGCCATAAGGGTTCTGTGTCGAATCACAGACGGTG

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ15122 (Selaginella moellendorffii), 3'ss of exon 4
gtttcattttcttatgcaacttttattttattttatattcttgtgtatggtctgtgatct-gtgttactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
                                                     || | || |||  |    ||| |   | |  | || ||   | |   |||    | |||||||||| ||||||||||| || ||||||||||||| |   ||||  ||| | |||||||||||||| ||  | ||||| ||| | || || || ||  
-----------------------------------------------------gtaagctcgtggaaacgcctttgg--aaaggttttttaagacatagctttgctgacagGTTATCATAGTCACAAGCTCGCTGATGAAGGACATGAGCTCTAAGACGGATCTCTACCGAGCAAATGCAATAAGGGTGCTTTGTAGGATTACAGATGGTG

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ08461 (Selaginella moellendorffii), 3'ss of exon 4
gtttcattttcttatgcaacttttattttattttatattcttgtgtatggtctgtgatct-gtgttactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
                                                     || | || |||  |    ||| |   | |  | || ||   | |   |||    | |||||||||| ||||||||||| || ||||||||||||| |   ||||  ||| | |||||||||||||| ||  | ||||| ||| | || || || ||  
-----------------------------------------------------gtaagctcgtggaaacgcctttgg--aaaggttttttaagacatagctttgctgacagGTTATCATAGTCACAAGCTCGCTGATGAAGGACATGAGCTCTAAGACGGATCTCTACCGAGCAAATGCAATAAGGGTGCTTTGTAGGATTACCGATGGTG

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|208336158|gb|GE139143.1|GE139143
EST:     GGAGAATGGTCTACCTGATGATAAAGGAGATCTCTCCCTCTGCTGACGAG                         GTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGAT
genomic: GGAGAATGGTCTACCTGATGATAAAGGAGATCTCTCCCTCTGCTGACGAGgtttcatttt ... ttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGAT
EST: gi|208263070|gb|GE062490.1|GE062490
EST:     GGAGAATGGTCTACCTGATGATAAAGGAGATCTCTCCCTCTGCTGACGAG                         GTTATCATCGTCACAAGCTCTCTCATAGAAGGACATGAA
genomic: GGAGAATGGTCTACCTGATGATAAAGGAGATCTCTCCCTCTGCTGACGAGgtttcatttt ... ttttaaatagGTTATCATCGTCACAAGCTCTCTCAT-GAAGGACATGAA
EST: gi|208331563|gb|GE127348.1|GE127348
EST:     GGAGAATGGTCTACCTGATGATAAAGGAGATCTCTCCCTCTGCTGACGAG                         GTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGAT
genomic: GGAGAATGGTCTACCTGATGATAAAGGAGATCTCTCCCTCTGCTGACGAGgtttcatttt ... ttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatctgtgttactaacttggattataaatattctatctctttaatttttaaatagGTTATCATCGTCACAAGCTCTCTCATGAAGGACATGAACAGCAAGATTGATATGTACCGAGCAAATGCCATTCGAGTGCTGTGTCGTATCACTGACGGAA
                                   tctctttaattttt  CT-rich tract
                ttggattataaatatt  TA-rich tract