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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcaagcactccctgcattccctttctatatcatataatcagtgtttttgtctgctttaatggggtattttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGAGGACACTAGTGTTATCAGTCCCACCCTCGGCTTCAATATCAAAACCATC

Basic information

species Vitis vinifera
transcript Vv04s0023g01820.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g01820.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g22140.1 (Oryza sativa), 3'ss of exon 2
-------------------------------------------------------------------------gtatgttcaagcactccctgcattc-----cctttctatatcatataatcagtgtttttgtctgctttaatggggtattttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGAGGACACTAGTGTTATCAGTCCCACCCTCGGCTTCAATATCAAAACCATC
                                                                             | |  |||  | | | | |         | |  || |  | |      || | |     |  |  ||||| |     |  |||||| || ||||| || |||||||| || || ||| | || |||||||| ||||| ||  | || ||||| ||||||||||||||||| ||||| ||||||
gtaggtgcccccctccacccccagagtttcttttgcgattctgtgggcaatccttctctctccattctggatctggcgcttgagcggttcgttcctctgtagatttcttgattttttgtgcctgatgctgtctggggaatctatgggttcacccg--cagGGGGCTGGATAACTCGGGGAAGACGACGATCGTGCTCAAGATCAATGGGGAGGATACCGGCGTCATCAGCCCCACCCTCGGCTTCAACATCAAGACCATC

upper sequence: Vv04s0023g01820.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G38270.1 (Glycine max), 3'ss of exon 1
---gtatgttcaagcactccctgcattccctttctatatcatataatcagtgt-ttttgtctgctttaatggggtatt-ttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGAGGACACTAGTGTTATCAGTCCCACCCTCGGCTTCAATATCAAAACCATC
      |||||   || | ||   ||| |  ||  ||    |  | |||   |   ||  |  ||| |||  | | || ||   ||| ||  | || ||||| ||||| || ||||| || || || || || ||||||||||| || || ||||||||||| ||||||||||| ||||||||||| 
gtaagttgttccttcaattcca--atttctctttgattctctccattcataatacattaacaccttgaatcagttgttattctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTTTAAAGATAAACGGAGAGGACACCAGCGTCATCAGTCCCACGCTCGGCTTCAACATCAAAACCATA

upper sequence: Vv04s0023g01820.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G07330.1 (Glycine max), 3'ss of exon 1
gtatgttcaagcactccctgcattccctttctatatcatataatcagtgttt--ttgtctgctttaatggggtatt-ttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGAGGACACTAGTGTTATCAGTCCCACCCTCGGCTTCAATATCAAAACCATC
||| |||    |      | || |  || | |   ||     ||   |  |   |||    ||| |||  | | || ||   ||| ||  | || ||||| ||||| || ||||| ||  | || || || ||||||||||| || || ||||||||||| ||||||||||| ||||||||||| 
gtaagttttttcttcaattccaatttctctttgattctctccattcataatacattgatatcttgaatcagttgttgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGAGGACACAAGCGTCATCAGTCCCACGCTCGGCTTCAACATCAAAACCATA

upper sequence: Vv04s0023g01820.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G18390.1 (Arabidopsis thaliana), 3'ss of exon 1
-----gtatgttcaagcactccctgcattccctttctatatcatataatcagtgtttttgtctgctttaatggggtattttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGAGGACACTAGTGTTATCAGTCCCACCCTCGGCTTCAATATCAAAACCATC
       || |||    |         ||| |       ||| || | | |   | ||   ||| |||      || |||| | ||| || ||||||||||| |||||||| || |||||  ||||||| || ||||| ||||| ||||| || ||||| || || || ||||| ||||||||||| 
gtatgtcatattcttaaatcgttaatcttctccgatctaatcgtaca-ttatcatgttgtgctgattttggaatgtttttttggcagTGGACTTGATAATTCTGGGAAGACGACGATTGTTCTGAAAATAAACGGAGAAGACACAAGTGTGATTAGTCCAACTCTTGGATTCAACATCAAAACCATT

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|77585513|gb|DV221842.1|DV221842
EST:     ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGT                         GGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
genomic: ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGTgtatgttcaa ... ttttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
EST: gi|27586914|gb|CB009609.1|CB009609
EST:     ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGT                         GGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
genomic: ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGTgtatgttcaa ... ttttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
EST: gi|110389868|gb|EC954740.1|EC954740
EST:     ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGT                         GGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
genomic: ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGTgtatgttcaa ... ttttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
EST: gi|71877049|gb|DT026104.1|DT026104
EST:     ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGT                         GGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
genomic: ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGTgtatgttcaa ... ttttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
EST: gi|77588566|gb|DV223498.1|DV223498
EST:     ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGT                         GGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
genomic: ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGTgtatgttcaa ... ttttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
EST: gi|77582928|gb|DV220463.1|DV220463
EST:     ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGT                         GGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
genomic: ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGTgtatgttcaa ... ttttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
EST: gi|30330574|gb|CD013836.1|CD013836
EST:     ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGT                         GGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
genomic: ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGTgtatgttcaa ... ttttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
EST: gi|110688789|gb|EE067741.1|EE067741
EST:     ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGT                         GGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
genomic: ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGTgtatgttcaa ... ttttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
EST: gi|37189475|gb|CF608824.1|CF608824
EST:     ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGT                         GGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
genomic: ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGTgtatgttcaa ... ttttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
EST: gi|71875381|gb|DT024436.1|DT024436
EST:     ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGT                         GGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA
genomic: ATCATTAGAAAAATCAAGAGAAAAGAGAAGGAAATGCGTATACTCATGGTgtatgttcaa ... ttttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctatatcatataatcagtgtttttgtctgctttaatggggtattttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGAGGACACTAGTGTTATCAGTCCCACCCTCGGCTTCAATATCAAAACCATC
                                ctttaat  putative branch site (score: 4)
     atatcatataatca  TA-rich tract