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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttctgtttttttttttcctttctctctctctctttttctttttttttttgactgaaattttggggttatggtgtttcagGTTGGGGCATACTTCGTGGGGCAGTACTACCAGGTTCTTCAGCAACAGCCAGACTTTGTTCACCAGTTCTACTCTGATGCCAGCACTGTGCTTCGCGTTG

Basic information

species Vitis vinifera
transcript Vv05s0049g01940.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01940.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G26640.1 (Glycine max), 3'ss of exon 1
gtaatttctgtttttttttttcctttctctctctctctttttctttttttttttga---ctgaaattttggggttatggtgtt---tcagGTTGGGGCATACTTCGTGGGGCAGTACTACCAGGTTCTTCAGCAACAGCCAGACTTTGTTCACCAGTTCTACTCTGATGCCAGCACTGTGCTTCGCGTTG
||  ||  | || || || |||   |   |||||   || |     ||  | | ||   ||  |||   | | |  |  ||||   |||||||||  | ||||||||||| |||||||| ||||| ||||||   || || || || || |||||||| |||||||||||||||||  |||| ||  | |
gttcttcttcttcttcttcttctcgttcttctctgatttatatcaattcatatcgaaaactcgaatcacgtgttatttttgttcgttcagGTTGGAACGTACTTCGTGGGACAGTACTATCAGGTGCTTCAGAGCCAACCCGAGTTCGTGCACCAGTTTTACTCTGATGCCAGCACCATGCTCCGTATCG

upper sequence: Vv05s0049g01940.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G34200.1 (Glycine max), 3'ss of exon 1
-gtaatttctgtttttttttttcctttctctctctctct---ttttctttttttttttgactgaaattttggggttatggtgtttcagGTTGGGGCATACTTCGTGGGGCAGTACTACCAGGTTCTTCAGCAACAGCCAGACTTTGTTCACCAGTTCTACTCTGATGCCAGCACTGTGCTTCGCGTTG
  | | ||||   || |||||||   |  |  | | |       |||| |||    |  |  ||||  ||   ||| ||    ||||||||||| | ||||| ||||||||||||||||| |||||| ||    | || || || ||  | |||||||| ||||||||||||||  || | ||| | |
gttcacttctaacttcttttttctcatacccttttgttcaaacattctgtttcacctcaaaagaaacctttttgttttg----ttcagGTTGGGACTTACTTTGTGGGGCAGTACTACCATGTTCTTGAGACCAACCCCGAGTTGGTGTATCAGTTCTATTCTGATGCCAGCACAATGGTACGCATCG
















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|71854675|gb|DT003730.1|DT003730
EST:     CTGGGTTCGTAATGGCGACTTCGTTCCCCTTTCATGTCACTGCTGCTCAG                         GTTGGGGCATACTTCGTGGGGCAGTACTACCAGGTTCTTCAGCAACAGCCA
genomic: CTGGGTTCGTAATGGCGACTCCGTTCCCCTTTCATGTCACTGCTGCTCAGgtaatttctg ... ggtgtttcagGTTGGGGCATACTTCGTGGGGCAGTACTACCAGGTTCTTCAGCAACAGCCA
EST: gi|161717851|gb|FC064745.1|FC064745
EST:     CTGGGTTCGTAATGGCGACTTCGTTCCCCTTTCATGTCACTGCTGCTCAG                         GTTGGGGCATACTTCGTGGGGCAGTACTACCAGGTTCTTCAGCAACAGCCA
genomic: CTGGGTTCGTAATGGCGACTCCGTTCCCCTTTCATGTCACTGCTGCTCAGgtaatttctg ... ggtgtttcagGTTGGGGCATACTTCGTGGGGCAGTACTACCAGGTTCTTCAGCAACAGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctctctttttctttttttttttgactgaaattttggggttatggtgtttcagGTTGGGGCATACTTCGTGGGGCAGTACTACCAGGTTCTTCAGCAACAGCCAGACTTTGTTCACCAGTTCTACTCTGATGCCAGCACTGTGCTTCGCGTTG
                     ttttgac  putative branch site (score: 3)
        tttttctttttttttt  TA-rich tract