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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCCCACCCCAACTGAAACTAAAGAAATTGAATCTTCTTCTCCCATTTTCCGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcactatttcctctcttctcagcttcccctcccccccccnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn...

Basic information

species Vitis vinifera
transcript Vv07s0005g04550.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g04550.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA18G51310.1 (Glycine max), 5'ss of exon 1
---ACCCCACCCCAACTGAAACTAAAGAAATTGAATCTTCTTCTCCCATTTTCCGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcactatt--tcctctcttctcagcttcccctcccccccccnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn---------------------------------------------------------------------------------
   |    |  | |  |||   |||  | | ||   ||  ||| || || ||  | |||||||||||| | ||||||||||||||| | |||||||  |||||||  ||  |     |      | || |  | |        |                                                                                                                                              
AGGATAAGAATCAAGTTGAGGATAATAATAATG---CTGATTCACCAATATTTAGGAACAAAGAGAAGCTATTGGTCACTTGCTCTAGGCGCATCAATTACAGgtaatcgtttcgagtttcgattacttaattactttattttctgttacaaatttaaaattataatcaaaatgctttcttggtgtgtaaaatttaagaatagagaaattttgtcttgttttgtggttttgtttttgtatatgatattcatggagtgaagtgttttcttttccattaaatttatag

upper sequence: Vv07s0005g04550.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA08G28320.2 (Glycine max), 5'ss of exon 2
ACCCCACCCCAACTGAAACTAAAGAAATTGAATCTTCTTCTCCCATTTTCCGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgt------cttcactatttcctctcttctcagcttcccctcccccccccnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn--------------------------------------------
           |  || |  ||  || ||||   |  ||| || || ||  | |||||||||||| | ||||||||||||||| | |||||||  |||||||       | || | |    |   || | |  |||   ||  |    |                                                                                                     
TTTTGGGGTGGAAGGATAAGAATCAAGTTGAGGATGATTCACCAATATTTAGGAACAAAGAGAAGCTATTGGTCACTTGCTCTAGGCGCATCAATTACAGgtgattgtttccagtttccattactttattactttcttttctgctatgctgtcttgatgtgtcaaatttaagaatagagaaaatctgtcttgtctttctctatggtattcatgggtgaagtgttttttttttccttttctttttctatag
















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|161716827|gb|FC068099.1|FC068099
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|34544827|gb|CF513059.1|CF513059
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|294967323|gb|GW836677.1|GW836677
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110417096|gb|EC983122.1|EC983122
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110723555|gb|EE101001.1|EE101001
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|34549744|gb|CF517976.1|CF517976
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110731138|gb|EE109014.1|EE109014
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|30252907|gb|CB970458.1|CB970458
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|71854618|gb|DT003673.1|DT003673
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110702082|gb|EE080390.1|EE080390
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110720764|gb|EE096972.1|EE096972
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|37187733|gb|CF607086.1|CF607086
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110719294|gb|EE097103.1|EE097103
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110685809|gb|EE062855.1|EE062855
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110732371|gb|EE107597.1|EE107597
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110373531|gb|EC937775.1|EC937775
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|27585576|gb|CB008271.1|CB008271
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110718547|gb|EE095508.1|EE095508
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|294965135|gb|GW836966.1|GW836966
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
EST: gi|110685111|gb|EE063162.1|EE063162
EST:     CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAG                         GTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA
genomic: CGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcacta ... ttcttcatagGTATCGCCATTTGATGCTGAGTATAGTTTCGCTTCTCCCTCATGCCAAGAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCCCACCCCAACTGAAACTAAAGAAATTGAATCTTCTTCTCCCATTTTCCGCAACAAAGAGAAGGTGTTGGTCACTTGCTCTCGCCGCATCAGCTACAGgtcttcactatttcctctcttctcagcttcccctcccccccccnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccccccc