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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgggactctcatttctcagaagggccattcatctgaagtttttgtttttgatatatatatatatatgtattattgtccatttgtttgagatgctaagtgcatgtttgctttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGTGGTGATGCCAAAGGCATGGCAAGGGATGTCCACAGAACTCTTCATACCA

Basic information

species Vitis vinifera
transcript Vv11s0052g00880.t01
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os08g14570.1 (Oryza sativa), 3'ss of exon 15
gtacgggactctcatttctcagaagggccattcatctgaagtttttgtttttg-atatatatatatatatgtattattgtccatttgtttgagatgctaagtgcatgtttgctttat--atctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGTGGTGATGCCAAAGGCATGGCAAGGGATGTCCACAGAACTCTTCATACCA
                          |  ||| | ||  | ||    ||||   | || | | |  || || |   |  |   ||||||     |      |   |  |  |||| |   || |||| || || || ||| |  | || || ||||| || |||||||| |||||||||||||||||||||||||| || ||||| || |||  ||| || ||||
--------------------------gtaattgaact--acttgacattttcatacatgtttgttgatctgcaaattcatgtttttgttcagcgttgctcatatttcctacctttgtctgtccagGCTTCCGAAATCTGGGACATGATCTCCCAGGGTGGTTACATTTACGTCTGTGGTGATGCCAAAGGCATGGCCAGAGATGTACATAGAGTTCTCCACACCA

upper sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G144407_T01 (Zea mays), 3'ss of exon 16
gtacgggactctcatttctcagaagggccattcatctgaagtttttgtttttgatatatatatatatatgtattattgtccatttgtttgagatgctaagtgcatgtttgctttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGTGGTGATGCCAAAGGCATGGCAAGGGATGTCCACAGAACTCTTCATACCA
                          |  |  || |||     |   ||| ||||  |  | |       |   |    ||| | | |       ||   ||| | | | | || | || |||| || || || ||| |  | || || || || |  ||||| ||||||||||||||||||||||||||||| || ||||| || |||  ||| || ||||
--------------------------gtaacacagctg----ctcgttttctgatcaacttctgctgccctccaa--acccagtggctcactgctct---tgcctttgttcattttttccagGCATCTGAAATCTGGGACATGATCTCCCAAGGTGCTTACATCTATGTCTGTGGTGATGCCAAAGGCATGGCCAGAGATGTACATAGAGTTCTCCACACCA

upper sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AC217947.4_FGT002 (Zea mays), 3'ss of exon 15
gtacgggactctcatttctcagaagggccattcatctgaagtttttgtttttgatatatatatatatatgtattattgtccatttgtttgagatgctaagtgcatgt-ttgctttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGTGGTGATGCCAAAGGCATGGCAAGGGATGTCCACAGAACTCTTCATACCA
                               | |||  ||| |  |  | |||  | | |  | | | |    |     || |      | |   |  ||| | ||  ||  |  || || |||| || || || ||| |  | || || || || |  ||||| |||||||||||||| |||||||||||||| || || || || |||  ||| |||||||
------------------------------gtaatc--aagctgctcatcttgtgacaaacttctgt-taccctccaacccgtaacccagtggctcacagttcttgcctttgtccatttccagGCATCTGAAATCTGGGACATGATCTCCCAAGGTGCTTACATCTATGTCTGTGGTGACGCCAAAGGCATGGCCAGAGACGTACATAGAGTTCTCCATACCA

upper sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA13G00990.1 (Glycine max), 3'ss of exon 16
gtacgggactctcatttctcagaagggccattcatctgaagtttttgtttttgatatatatatatatatgtattattgtccatt--tgtttgagatgc-taagtgcatgtttgctttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGTGGTGATGCCAAAGGCATGGCAAGGGATGTCCACAGAACTCTTCATACCA
                                     | | ||  | |||   | |||     || ||| |||||     ||     || ||  |||| | | |  | | ||  | |   |  |||| || || |||||||   | || ||||| ||||  ||||||||||| |||||||||||||| |||||||| |||||||| ||| |  | || || || |
-------------------------------------gtacttactttttcccagatacg---atttatttattaccaatcaacgcggtatgccatgccttaattgacggttcatgtgcctgcagGCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGTGGTGATGCCAAGGGCATGGCCAGGGATGTACACCGTGCCCTGCACACAA

upper sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA17G07050.2 (Glycine max), 3'ss of exon 16
gtacgggactctcatttctcagaagggccattcatctgaagtttttgtttttgatatatatatatatatgtattattgtccatt--tgtttgagatg-ctaagtgcatgtttgctttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGTGGTGATGCCAAAGGCATGGCAAGGGATGTCCACAGAACTCTTCATACCA
                                        ||  || || | |  ||| |   || |||  |||||    || |   || ||   |  || | |  | | ||  | |   |  |||| || || |||||||   | || || || ||||  ||||||||||| |||||||||||||| |||||||| |||||||| ||| |  | || || || |
----------------------------------------gtacttattctcgg-ataca---atttattaattatcaatcaatgcggtatgccttatcttaatcaacggttcatgtgcctgcagGCTTCAGAAATTTGGAGCATGATATCACAAGGAGCTTACATTTATGTGTGTGGTGATGCCAAGGGCATGGCCAGGGATGTACACCGCGCCCTGCACACAA

upper sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT4G30210.1 (Arabidopsis thaliana), 3'ss of exon 15
gtacgggactctcatttctcagaagggccattcatctgaagtttttg---tttttgatatatatatatatatgtattattgtccatttgtttgagatgctaagtgcatgtttgctttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGTGGTGATGCCAAAGGCATGGCAAGGGATGTCCACAGAACTCTTCATACCA
                                  | |||  || | |         |   | || |  ||||  |||    | ||  |  ||||| ||  ||       | |   |   ||  |||| || ||||| |||||| | || ||||| ||||  ||  | ||||| |||||||| ||||||||||||||||| ||||| |||||| |||| || || |
---------------------------------gtatgagcttatagaaacccaaaactcagatcttcatatagattcaaattcagattcttgagctgacaa-------tctttctgcaatgcagGCTTCTGATATCTGGAATATGATCTCTCAAGGAGCTTATTTATATGTTTGTGGTGACGCCAAAGGCATGGCAAGAGATGTTCACAGATCTCTCCACACAA

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|32267884|gb|CD717043.1|CD717043
EST:     CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAG                         GCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
genomic: CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAGgtacgggact ... ttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
EST: gi|32270252|gb|CD719411.1|CD719411
EST:     CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAG                         GCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
genomic: CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAGgtacgggact ... ttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
EST: gi|56409444|gb|CX017696.1|CX017696
EST:     CATGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAG                         GTGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
genomic: CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAGgtacgggact ... ttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
EST: gi|30324587|gb|CD007849.1|CD007849
EST:     CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAG                         GCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
genomic: CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAGgtacgggact ... ttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
EST: gi|30326071|gb|CD009333.1|CD009333
EST:     CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAG                         GCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
genomic: CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAGgtacgggact ... ttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
EST: gi|352774216|gb|FQ474739.1|FQ474739
EST:     CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAG                         GCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
genomic: CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAGgtacgggact ... ttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
EST: gi|110699884|gb|EE077290.1|EE077290
EST:     CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAG                         GCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
genomic: CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAGgtacgggact ... ttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
EST: gi|30322494|gb|CD005756.1|CD005756
EST:     CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAG                         GCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
genomic: CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAGgtacgggact ... ttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
EST: gi|32271899|gb|CD721058.1|CD721058
EST:     CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAG                         GCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT
genomic: CACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAGgtacgggact ... ttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtattattgtccatttgtttgagatgctaagtgcatgtttgctttatatctagGCGTCGGATATTTGGAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGTGGTGATGCCAAAGGCATGGCAAGGGATGTCCACAGAACTCTTCATACCA
                                       tttgcttt  CT-rich tract
                                            tttatatcta  TA-rich tract