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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgcttacttttttatgaccctgatctctattttatcacattactcttttgatattgaactgtttaaattttattattgcagATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACCCTTCATGTATTTCCGCTCTCAGGAACAG

Basic information

species Glycine max
transcript GLYMA13G17950.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os01g14810.1 (Oryza sativa), 3'ss of exon 15
gtatgtgcttacttttttatgaccctgatctctattttatcacattactcttttgatattgaactgtttaaattttattat---tgcagATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACCCTTCATGTATTTCCGCTCTCAGGAACAG
||  ||| |||   ||||       |||    |||||||| |    |   |||   | |  || ||     ||||| |  |   ||||||||||||||||| || ||||| ||||| ||||||||| |  ||||||| || |||||||||||||  || || ||||||
gtgagtggttatggttttgcagtggtgaatattattttatgagcccaaattttatctgtgtaaatgcaattattttgtcctcggtgcagATATGCTGATATATACACATCAAGGGTTTCAAATTTTCTACATTATACTCCATTCATGTATTTCCAATCACAAGAACAG

upper sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os01g14810.3 (Oryza sativa), 3'ss of exon 16
gtatgtgcttacttttttatgaccctgatctctattttatcacattactcttttgatattgaactgtttaaattttattat---tgcagATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACCCTTCATGTATTTCCGCTCTCAGGAACAG---------------------
||  ||| |||   ||||       |||    |||||||| |    |   |||   | |  || ||     ||||| |  |   ||||||||||||||||| || ||||| ||||| ||||||||| |  ||||||| || |||||||||||||  || || ||||||                     
gtgagtggttatggttttgcagtggtgaatattattttatgagcccaaattttatctgtgtaaatgcaattattttgtcctcggtgcagATATGCTGATATATACACATCAAGGGTTTCAAATTTTCTACATTATACTCCATTCATGTATTTCCAATCACAAGAACAGGTAATTGCAAAACTCTAGATG

upper sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G044819_T02 (Zea mays), 3'ss of exon 14
gtatgtgcttacttttttatgaccctgatctctattttatcacattactcttttgatattgaactgtttaaattttattattgcagATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACCCTTCATGTATTTCCGCTCTCAGGAACAG
||  ||   ||  ||||| | |   |||     | | |     |  ||     ||| ||  ||||  ||     ||  |  || |||||||||||||| || ||||| ||||| ||||||||| || | ||||| || |||||||||||||  ||||| ||||||
gtgagtcgctatattttttttatagtgaaaaaaaatgttatggac-accaaactga-atgcaactaattttgcatt--tcctgtagATATGCTGATATATACACATCAAGGGTTTCAAATTTTCTGCACTATACTCCATTCATGTATTTCCAATCTCAAGAACAG

upper sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 15
--------------------gtatgtgcttacttttttatgacc------ctgatctctattttatcacattactcttttgatattgaactgtttaaattttattattgcagATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACCCTTCATGTATTTCCGCTCTCAGGAACAG
                     |   | |||  ||| |||||         || | ||  ||    | |   | ||   || ||||    ||    | || ||   ||||||| |||||||||||||| || |||||||| ||||||||  |  ||||||||||||| |||||||| | ||| |||||||||
gtatgtgcttttccttcattatgccttctttttttcttatgtaggagtaactaaacttcataaactaagggttctacctttatatgatccttacaatatcttccaattgcagGTATGCTGATATTTACACCTCTAGGGTCTCAAATTTCCTACATTATACACCCTTTATGTATTTTCACTCACAGGAACAG

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|23735341|gb|BU765945.1|BU765945
EST:     TCTCGTGCTGGACTGTGGGATAAAAGCCACTTGATGAGACAAATTGAGAA                         ATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACC
genomic: TCTCGTGCTGGACTGTGGGATAAAAGCCACTTGATGAGACAAATTGAGAAgtatgtgctt ... attattgcagATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACC
EST: gi|9564227|gb|BE473736.1|BE473736
EST:     TCTCGTGCTGGACTGTGGGATAAAAGCCACTTGATGAGACAAATTGAGAA                         ATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACC
genomic: TCTCGTGCTGGACTGTGGGATAAAAGCCACTTGATGAGACAAATTGAGAAgtatgtgctt ... attattgcagATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACC
EST: gi|213606425|gb|DB976530.1|DB976530
EST:     ACAAATTGAGAA                         ATATGCTGATATTTATACATCTA-CGTCCTCAAATTTTTTGTATTATACAC
genomic: ACAAATTGAGAAgtatgtgctt ... attattgcagATATGCTGATATTTATACATCTAGGGT-GTCAAATTTTTTGTATTATACAC
EST: gi|214007914|gb|DB986475.1|DB986475
EST:     TGGCGTGCTGGACTGTGGGATAAAAGCCACTTGATGAGACAAATTGAGAA                         ATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACC
genomic: TCTCGTGCTGGACTGTGGGATAAAAGCCACTTGATGAGACAAATTGAGAAgtatgtgctt ... attattgcagATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattttatcacattactcttttgatattgaactgtttaaattttattattgcagATATGCTGATATTTATACATCTAGGGTGTCAAATTTTTTGTATTATACACCCTTCATGTATTTCCGCTCTCAGGAACAG
                   ttttgat  putative branch site (score: 4)
                                         ttttatt  putative PPT
                 tcttttgatattgaac  TA-rich tract