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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctttgtttgttatattcatggaatttgaaatgataaaagacaataggttttctcttaacatattcttttgggtttttttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA

Basic information

species Vitis vinifera
transcript Vv11s0016g02850.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 3'ss of exon 4
--gtaagtctttgt-ttgttatattcatggaatttgaaatgataaaagacaataggttttctcttaacatattcttttgggtttttttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA
   ||   | |||| ||  |||| | |   || |  |  ||  |||| || ||   |||| ||| |    ||  |      ||  |   ||||||| |||||| || ||||| || |||||||| ||||| |||||||| ||  | |||||||| || ||||| || ||||||||||| |||||||||||  
gtatataacattgtattcatatactaacacaaat-aagttggaaaaaaactattctttttttctcacttcatatt-----attcctggtcagGTGTTTTTTGAATCGGATGAGGTCCATGCATGCATTGTCACATGTGGAGGACTGTGCCCTGGACTGAACACTGTCATTAGGGAAATTGTATGTGGCTTAT

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G443985_T04 (Zea mays), 3'ss of exon 4
-------------gtaagtctttgtttgttatattc-----atggaatttgaaatgataaa-agacaata---------ggttttctcttaacatattctt-------ttgggttt---ttttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA
              | | | || |  | || ||  |     |   |  | ||||| |     |||  |||         |  | |   |||    ||||||       | | | ||   || |  |||| ||||||||  | ||||| || || ||||| ||||| || ||||| || || |||||||| || || || |||||||||||||| |||||||||||  
gtatatgaaccttatgatttttcgcatattgtacgctaataaaaaagctagaaataagggggagatgatactactaaacgtgtatgctttacttcattcttcgtaacctcgtgcttgtcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGATTGTGCCCTGGACTTAATACTGTGATTAGGGAAATTGTATGTGGCTTAT

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G816636_T02 (Zea mays), 3'ss of exon 4
-----------------------------------------------------------gtaagtctttgtt-tgtta-tattcatggaatttgaaatgataaaagacaataggttttctcttaacatattcttttgggttttttt--ccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA
                                                           |  || |  | |  | | | ||  | || || ||    | | |||       || || | || |    | |    |  |||| | ||    |||| ||||||||  | ||||| || |||||||| ||||| || ||||| || || ||||| || || || || |||||||||||||| |||||||| ||  
gtatacaaaccttgtgcttttcacattctctacgctaatagcaaagctaggagataagggggagacaatataatatcactaaccttgtaagtttctttcaaaaaccttgtaagtttctttcgttctttgtaacctctggttgtcttggttagGTATATTTTGAACCGGATGAGGTCCATGCATGCATTGTCACTTGTGGAGGATTGTGCCCGGGACTTAATACTGTGATTAGGGAAATTGTATGTGGATTAT

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G816636_T01 (Zea mays), 3'ss of exon 3
-------gtaagtctttgtt-tgtta-tattcatggaatttgaaatgataaaagacaataggttttctcttaacatattcttttgggttttttt--ccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA
       |  || |  | |  | | | ||  | || || ||    | | |||       || || | || |    | |    |  |||| | ||    |||| ||||||||  | ||||| || |||||||| ||||| || ||||| || || ||||| || || || || |||||||||||||| |||||||| ||  
gataagggggagacaatataatatcactaaccttgtaagtttctttcaaaaaccttgtaagtttctttcgttctttgtaacctctggttgtcttggttagGTATATTTTGAACCGGATGAGGTCCATGCATGCATTGTCACTTGTGGAGGATTGTGCCCGGGACTTAATACTGTGATTAGGGAAATTGTATGTGGATTAT

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G03570.1 (Glycine max), 3'ss of exon 4
gtaagtctttgt----ttgttatattcatggaatttgaaatgataaaagacaataggttttctcttaacatattcttttgggttttt------ttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA
||| || | | |     |   ||||  ||||  ||| |  |  |||   | | |    | | | | | | |||  |  ||| | | |       | ||||||||||| || || ||||| ||||| ||    |||||||||||||||||| ||||||||||||||||||| || ||||||||| |||||||||   |  
gtatgtttctataatactaccatatgtatgg--ttttatctcttaaggaaaattcttgtgtttatgaccgtatgatactggatatatatatgtattcagGTGTATTTCGAATCAGATGATGTTCAGGCTGCAATTGTGACATGTGGTGGTCTATGCCCTGGCCTCAACACCGTCATTAGGGAACTAGTATGTGCACTAT

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G36050.1 (Glycine max), 3'ss of exon 4
-----gtaagtctttgtt-tgttatattcatggaatttgaaatgataaaagacaataggttttctcttaacatattcttttgggttt------ttttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA
      || || | | |  |   || |   |     || |  |  |||   | | |    | | | | | | |||  |  ||| | |       | | ||||||||||| || || ||||| ||||| ||    |||||||||||||||||| |||||||||| |||||||| || ||||||||| | |||||||   |  
gtatgttatgtttctataataccatgtgtgtatgggtttatctcttaaggaaaattcttgtgtttatgaccgtatgatactggatatatacatatattcagGTGTATTTCGAATCAGATGATGTTCAGGCTGCAATTGTGACATGTGGTGGTCTATGCCCTGGTCTCAACACCGTCATTAGGGAACTTGTATGTGCGCTAT

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 4
gtaagtctttgtttgt---tatattcatggaatt--tgaaatgataaaagacaataggttttctcttaacatattctt---ttgggtttttttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA
||| || | ||| |||   | |||   || | ||  ||| || |||   |  |     ||||   |||     |||     |||| | | | | |||||||| |||||  ||||||||||||| ||    ||||| || ||||| ||| | || ||||| |||||||| || ||||||||| |||| ||||||||  
gtatgtttctgtgtgtgggtctatctgtgcatttattgacat-atatttggtaccttatttttgtttatggccttcccaaattggatatatattcagGTGTACTTTGAAGCTGATGAAGTTCAAGCTGCCATTGTTACTTGTGGGGGTCTGTGTCCTGGGCTCAACACTGTCATTAGGGAATTAGTGTGTGGCTTAC

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G00870.1 (Glycine max), 3'ss of exon 4
gtaagtctttgtttgt-tatattcatg-gaatttgaaatgataaaagacaataggttttctcttaacatattcttttgggtttt--tttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA
||| || | | | ||| |   |  |   | |  |  | ||| | | |    ||  || | | |    ||   ||| |    |||  | | |||||||| |||||  | ||||||||||| ||   |||||| || ||||| ||| | || ||||| |||||||| || ||||||||| |||| ||||||||  
gtatgtttctatgtgtgtgggtctacctgtacatttattgacatatg-tggtaccttatttttgtttatggccttctaaaatttgatattcagGTGTACTTTGAAGCAGATGAAGTTCAGGCTGCTATTGTTACTTGTGGGGGTCTGTGTCCTGGGCTCAACACTGTCATTAGGGAATTAGTGTGTGGCTTAC

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|110416399|gb|EC982380.1|EC982380
EST:     AGAGTAGTCCAAGAGGGACACATTTTCGACGTGCTGGACCCCGTCAAAAG                         GTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGT
genomic: AGAGTAGTCCAAGAGGGACACATTTTCGACGTGCTGGACCCCGTCAAAAGgtaagtcttt ... ttttttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgataaaagacaataggttttctcttaacatattcttttgggtttttttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA
                        tcttaac  putative branch site (score: 2)
                                            tttttttcc  putative PPT
                          ttaacatattctttt  TA-rich tract