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

ggtatgtttcactatctctgtgaatgtgtctatttttttgtgattagtcatggctttcatttgtcagcaaaatttggaataactactttatattttgattctttgtataattattctttgcttttctgtatgtacgtccactctcaaGTGTCGGTGCAGTTGTATTCTCCACTGCGTCCATTGGTTGATGTTGCAGAAGTGTTTTTATGGCTTATGGCTGTCGGTACCATTCTCTGTGCTTCTTACT

Basic information

species Glycine max
transcript GLYMA18G46760.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g57710.1 (Oryza sativa), 3'ss of exon 4
ggtatgtttcactatctctgtgaatgtgtctatttttttgtgattagtcatg--gctttcatttgtcagcaaaatttggaataactactttatattttgattctttgt-ataattattctttgcttttctgtatgtacgtccactctca-aGTGTCGGTGCAGTTGTATTCTCCACTGCGTCCATTGGTTGATGTTGCAGAAGTGTTTTTATGGCTTATGGCTGTCGGTACCATTCTCTGTGCTTCTTACT-
 |||  | |  | |   ||   |     |  | | || ||  ||     |||  | |||  ||| |     |||||| |  |   |   ||  |  ||| || || |  ||| |   |      | |   | || |   | || | ||  ||| ||||||||| | || ||||||   |||||  ||||||||  |||||| |||||||| |||||||||||||| ||||||||||| ||||| || |||| 
-gtaaatctt-caaagccttccaccacctgaaatcttgtgccatgtcctatgtaggttttttttttgtttcaaattttgttt---tgtcttggaagttgttttttggccatagtatctaacatatgtatcgaatttgttttcaatttctcagTTTCGGTGCAGCTATACTCTCCAGACCGTCCTCTGGTTGATACTGCAGAGGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTCTTTGTGCATCATACTG

upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G096343_T01 (Zea mays), 3'ss of exon 4
----ggtatgtttcactatctctgtgaat-gtgtctatttttttgtgattagtcatggctttcatttgtcagc----aaaatttggaataactactttatattttgattctttgtataattattctttgcttttctgtatgtacgtccactctcaaGTGTCGGTGCAGTTGTATTCTCCACTGCGTCCATTGGTTGATGTTGCAGAAGTGTTTTTATGGCTTATGGCTGTCGGTACCATTCTCTGTGCTTCTTACT-
      | | | ||   |  ||  ||  | ||||| || | | ||     |    || || |  ||  | | |     | ||||    |||||    |||       || |||   |      |   |      ||   | | | |    |    ||| |  ||| || |||| ||||||   |||||  ||||||||  |||||| |||||| | ||||||||||| || ||||||||||| ||||| || |||| 
gtaaattgtttgtcttcagttccatgctttgtgtc-atctctgtgaatacatgggtgcctatgtttgtttaacttttcatatttttggtaacttgagtattggaaacttattttagtgcaaggtagctaacaggctaagttttcctttttttgtcagTCTTAGTGGAGCTGTACTCTCCAGATCGTCCTCTGGTTGATACTGCAGAGGTGTTTCTGTGGCTTATGGCAGTTGGTACCATTCTTTGTGCATCATACTG

upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 4
ggtatgtttcactatctctgtgaatgtgtctatttttttgtgattagtcatggctttcatttgtcagcaaaatttggaataactactttatattttgattctttgtataattattctttgcttttctgtatg-tacgtccactctcaaGTGTCGGTGCAGTTGTATTCTCCACTGCGTCCATTGGTTGATGTTGCAGAAGTGTTTTTATGGCTTATGGCTGTCGGTACCATTCTCTGTGCTTCTTACT-
        | | | |   | | |||    || |  ||  |  ||   |      | |  | | | |||| |  ||   |||  |   |   || |   | || | | |   | |||||||  ||  |||    ||  |    ||   |||  |  ||||| | || || ||    ||||||   |||||||| || || || ||| | |||||||||||||||||||||||| | ||||||||||| | 
-------gtaattcttcgtataaatcaaactgtacttccgc-atagattgctcttcttgtattttagcatatcttatcatagtt---tggcatctctgtgctctctct---ttttctttgagttggtgttgactatatttgttc---agTTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGGTCTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTG

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|208112012|gb|GD911088.1|GD911088
EST:     CACAAGATGCTGGTGAAAACTTGAAAAATCACATACTAAACAATTCAGTA                         GTGTCGGTGCAGTTGTATTCTCCACTGCGTCCATTGGTTGATGTTGCAGAA
genomic: CACAAGATGCTGGTGAAAACTTGAAAAATCACATACTAAACAATTCAGTAggtatgtttc ... ccactctcaaGTGTCGGTGCAGTTGTATTCTCCACTGCGTCCATTGGTTGATGTTGCAGAA
EST: gi|254329287|gb|GR833659.1|GR833659
EST:     CACAAGATGCTGGTGAAAACTTGAAAA-TCACATACTAA-CAATTCAGTA                         GTGTCGGTGCAGTTGTATTCTC-ACTGCGTCAAT-GGTTGATGTTGCAGAA
genomic: CACAAGATGCTGGTGAAAACTTGAAAAATCACATACTAAACAATTCAGTAggtatgtttc ... ccactctcaaGTGTCGGTGCAGTTGTATTCTCCACTGCGTCCATTGGTTGATGTTGCAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgattctttgtataattattctttgcttttctgtatgtacgtccactctcaaGTGTCGGTGCAGTTGTATTCTCCACTGCGTCCATTGGTTGATGTTGCAGAAGTGTTTTTATGGCTTATGGCTGTCGGTACCATTCTCTGTGCTTCTTACT
 ttttgat  putative branch site (score: 4)
                                            tccactctc  putative PPT
     attctttgtataatta  TA-rich tract