Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtatatacttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattgaattaaatttgattgatttttttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG

Basic information

species Vitis vinifera
transcript Vv01s0011g03110.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G21900.1 (Glycine max), 3'ss of exon 3
gtgtgtatatacttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattgaattaaatttgattgatttttttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
  |||  ||| ||| |  | | |||      | | ||  |  | | ||  | ||     | ||| ||| |  |  |||  | |||| |  ||||| |||     ||  | |  || || ||| || || || ||||||||||| ||||||||||||||||| || || ||||||||||||||||| |||||||||
--gtgagtat-cttagtta-atttgcacaagttgctatgtgctctaaa--ttatgcaattgaaattggaaccgctttgtgtcaaatgt--ttgatgtttggtatttggtgtt-tgtagCTGCCACGCCTAAACAGATCAGGGAGCTGATGAAGGTTGATGGCCTAACCAATGATGAAGTCAAAAGTCATTTACAG

upper sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G32770.2 (Glycine max), 3'ss of exon 3
gtgtgtatat--acttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattga-attaaatttgattgatttttttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
||| |||| |  |  |  ||    || |  || | || |   |   |  | |  || |||       || | ||||  ||  | || | ||| ||  |  |  |      | || || ||| ||| || |||||||| ||||| || |||||||| |||||||| || || ||||||||||||||||||||||| |||
gtgagtatctcaatatatagtatgttctttttttggtaatgatgaatatatagtatgtcctgattgttgtgtttgagatgttactataattgcttattgataattttggctgtttctacagCTGCCACACCAAAGCAAATCAGAGAGCTGATGAATGTTGATGGCCTCACAAATGATGAAGTCAAAAGCCATTTGCAG

upper sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G10940.1 (Glycine max), 3'ss of exon 3
gtgtgtatatacttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattgaattaaatttgattgatttttttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
                | || ||  | |  | |   |||   ||   |   ||||      ||       |||  |  |||      || ||   | |||    ||| ||  ||| || ||| || || || || ||||||||| | |||||||||||||| || || ||||||||||||||||| |||||||||
--------------caataccatgattagccgaacaaaaaaatt---atgcaattgtaaataac-cacttttgtgtcaaatgtttgatgttttggtatttggtgtttgttgtctgtagCTGCCACGCCCAAACAAATCAGGGAATTAATGAAGGTTGATGGCCTCACCAATGATGAAGTCAAAAGTCATTTACAG

upper sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G34780.1 (Glycine max), 3'ss of exon 3
gtgtgtatatacttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattga-attaaatttgattgatttttttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
                               |   ||  | | | ||  ||  ||    |    ||| | ||||  ||  | || | ||| ||  |  || |     |  || |||||| ||| || |||||||| || || ||  | ||||| |||||||| || || ||||||||||||||||||||||| |||
------------------------------gtgagtatctctatatagtatg-ttctgattgttatgtgtttgagatgttactataattgcttattgattattttggtggtttctgcagCTGCCACACCAAAGCAAATTAGAGAGATAATGAATGTTGATGGCCTCACAAATGATGAAGTCAAAAGCCATTTGCAG

upper sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G13300.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgtgtat---atacttggagacaattgtgattctagttaaatttttttaacataatttccctca--aaatgggattgaattgaattaaatttg---attgatttttttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
||| || |   ||   |  | |  |||   ||| |  | ||| | ||| || | | ||    |    | || || ||     || ||   || |   ||||||||||      |   ||  |||||| ||||| |||||||| ||||||||  | ||||||||||||||| | || ||||||||||| |||||||||||||||
gtgcgttttgaatttatttatatgatttacattgttttcaaactatttgaataaatttgttgttgttatatagggtttttgagattttggttagtatattgatttttagtaaatgaattt-tgcagTAGCTACGCCAAAGCAAATCAGGGAGTTTATGAAGGTTGATGGGTTAACCAATGATGAAGTTAAAAGCCATTTACAG

upper sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G68670.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------------------------------gtgtgtatatacttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattga-attaaa-------tttgattgatttttttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
                                                                     ||   || | |  ||     ||   | |       | ||  |||  |  ||| |       || |  |  |   ||  | ||||||       ||| |||     ||||   |     || |||||||||||| |||||||| |||||||| |  ||||||||||||||  | || || || ||||| |||||||||||||||
gtaattacgattaattttaattacctgattatcttctatctgattggttcattagtgattcataatcgggttgataaagaactgtttttaaacattaaaacgtctcaacatttacattatattagtaagtaacaaagattattatcaacattaaaaaatgatttttatttgacattttatttgccaatcttgcagTTGCTACACCAAAGCAAATCAGGGATCACATGAAGGTTGATGGATTAACAAACGACGAAGTTAAAAGCCATTTACAG

upper sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G25790.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgtgtatatacttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattgaattaaatttgattgattttttt-ccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
  |||  | | |||||    || |   |   ||  ||   |   |   ||||  ||      |      ||  | || |||||| |   | |||  |||||   |  |   |  || ||| ||||| || || ||||| || ||  | ||||||||||||||| | || ||||||||||||||||| |||||||||
--gtgcgttt-cttggttttaagttaaaacatatata---tcagtagtcatatctttttgttagggctcatgaagtttaattaattcgtaatgacctttttgttcactaaattttgaagTAGCTACGCCGAAACAGATAAGAGATATAATGAAGGTTGATGGGTTAACAAATGATGAAGTCAAAAGTCATTTACAG

upper sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G25550.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgtgtatatacttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattgaattaaatttgattgattttt-ttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
                        || | | || ||||||  ||| |       ||   | | |||   | |     ||     || |  || |||||| |||  | |      |||||||||||| || |||||||| || || || |||||||| |||||  | |||||||| ||||| ||||| |||||||||
------------------------gtaaatata-ttaaatcctttga-------ttgtttgagaatcataattttacgagaagtatatatttaatttttgttcattgtcaaatatgcagTTGCTACGCCTAAGCAGATTAGAGATCTTATGAAGGTCGATGGTTTAACTAATGACGAAGTTAAAAGTCATTTACAG

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|161712473|gb|FC061778.1|FC061778
EST:     GTTGCATAGGCGGTTCTTGCATGCCCTTCAACAGCTTGGTGGTTCTCATG                         TTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTA
genomic: GTTGCATAGGCGGTTCTTGCATGCCCTTCAACAGCTTGGTGGTTCTCATGgtgtgtatat ... tttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgggattgaattgaattaaatttgattgatttttttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
                         gattgat  putative branch site (score: 4)
                      tttgattgattttttt  CT-rich tract
      attgaattgaattaaa  TA-rich tract