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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgctacccatcttctgctaaatcctgacactgggttttcttgaggatccaaaaaactaacattttttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC

Basic information

species Vitis vinifera
transcript Vv15s0046g02030.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g03410.1 (Oryza sativa), 3'ss of exon 2
gtattgctacccatcttctgctaaatcctgacactgggttttcttgaggatccaaaaaactaacattttttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
|||     |    |||||    || |     || |    || | |     ||  |  ||   |  ||||     ||  ||||    ||||  |||   |||||||| |||||||| ||||| ||||| || ||| | || || ||||||||||| |||||||||||||| ||||| || || |||||  |  |||| |||
gtacaatgaaatctcttc-atcaattttgtgcattattattccctc----tctgattaatggatgtttta----ctcacattgccgttttggttgaacagGATGCTCGTGTATGAATATGTAGACAACGGCAATCTTGATCAATGGCTTCATGGTGATGTAGGGGAAGTGAGCCCACTAACTTGGGAAGTCAGGATGAAC

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G317938_T01 (Zea mays), 3'ss of exon 2
------------------gtattgctacccatcttctgctaaatcctgac--actgggttttct-----tgaggatccaaa------aaactaacattttttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
                    ||||| | |  |  |  | |   |    ||  | | | || |||     |  || ||  ||      || ||  | | | |  |||  |  | || | | |  |||   |||||||| ||||||||||||||||||||||||||| | ||||||||||||||||| ||||| || ||||| ||||| ||||||||||| ||  |||| |||
gtatgtgtgttggcaggcacattgcaatctcttcttcgttcggtggacacctagttgcttctctcaatttagggttctcaatgatggaagcttgcttctgtatatcactactatggtctatgcttgaacagGATGCTCGTGTATGAGTATGTGGACAATGGTAATCTTGACCAGTGGCTTCATGGTGATGTTGGCGAAGTGAGCCCACTGACATGGGACATCAGGATGAAC

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G014366_T03 (Zea mays), 3'ss of exon 2
----------gtattgctacccatcttctgctaaatcc--tgacactgggttttcttgaggatccaaaaaactaacattttttcatctttcatt-tgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
           |||||||| |  |  |    |   |||  ||||||    | |   |  |||| |  || | |   |   |     || ||| | |  | | |  |||   |||||||||||||| ||||||||||||||||||||| | ||||||||||||||||| ||||| || ||||| ||||| || ||||||||  |  |||| |||
gtatgatggcatattgctatctcttcttcattcggtccggtgacacctactctcagtttggattctcaataatggaagcctgattcctgtcactgtcgtctatgcttgaacagGATGCTTGTGTACGAGTATGTGGACAATGGTAATCTTGACCAGTGGCTTCATGGTGATGTTGGAGAAGTAAGCCCACTAACATGGGACGTCAGGATGAAC

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G47170.1 (Glycine max), 3'ss of exon 2
gtattgctacccatcttc---tgctaaatcctgacactgggttttcttgaggatccaaaaaactaacattttttcatctttcatttgttttttttttgtc-tagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
|||||| |  |     |      |||||     | |    | |    | |   |         | |||   | | |  ||| |  |||     | || ||  ||||||||||||||||||||||| |||||||| ||| | || || ||||| ||||||||||| || |  || |||||| |||||||| | || ||||| |||
gtattgatttcttctcttaaaaactaaaaagaaaaaaattgatgctatcaattttgttcggtttgacaagatgtaagatttgaagtgtggcactgttttcacagGATGCTTGTGTATGAGTATGTAGACAATGGCAATCTAGAACAATGGCTGCATGGGGATGTTGGAGCTGTAAGCCCTTTGACATGGAACATACGGATGAAC

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G07250.1 (Glycine max), 3'ss of exon 3
gtattgctacccatcttctgctaaatcctgacactgggttttcttgaggatccaaaaaactaacattt-----tttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
||||   |     | || ||   | |   |  |   |  ||| ||  || |  || ||  ||| ||||     ||  |   |  |||   | ||  | | |  ||||||||||||||||| ||||| |||||||| ||| | || |||||||| ||||||||||| ||    || |||||  ||||||||||||| || || |||
gtatatttttttttgttttgaacattgaagctaaaagagtttgttt-ggtttaaagaatgtaagatttgaactttgaaggatgtattcaatattcatat-tgcagGATGCTTGTGTATGAATATGTTGACAATGGGAATCTAGAACAGTGGCTGCATGGGGATGTTGGACCTGTAAGCCCAATGACATGGGATATCCGAATGAAC

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G03650.1 (Glycine max), 3'ss of exon 2
-----gtattgctacccatcttctgctaaatcctgacactg-ggttttcttgaggatccaaaaaactaacattt----tttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
      | ||  |     | |  |  | ||   |||  ||      ||  |   | |  || ||  ||| ||||    ||| |  | |   ||   | ||  |  |  ||||||||||||||||| |||||  ||||||| ||| | || |||||||||||||||||||  ||    || |||||  ||||||||||||| || || |||
gtattttttttttttttttttcattttgaacattgaagctataaagtttgtttagtttaaagaatgtaagatttgaactttgaagtatgtattcaatgttcatattgcagGATGCTTGTGTATGAATATGTCAACAATGGGAATCTAGAACAGTGGCTTCATGGGGATGCTGGACCTGTAAGCCCAATGACATGGGATATCCGAATGAAC

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G39160.1 (Glycine max), 3'ss of exon 2
gtattgctacccatcttctgctaaatcctga--cactgggttttcttgaggatccaaa--------aaactaacattttttcatctttcatttgttttttttttgtc-tagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
|||||| || |  ||||||  ||||  || |              |||| | |   ||            | ||||  | | |  | | |  |||  |  | || ||  ||||||||||||||||||||||| |||||||| ||| | || || ||||| |||||||| || || |  || |||||| |||||||| | || ||||| |||
gtattgatatct-tcttctcttaaaaactaaatagaaaaaaaaaattgatgctatcaattttgtttggtttgacatgatgtgagatctgaagtgtggtactgttttcacagGATGCTTGTGTATGAGTATGTAGACAATGGCAATCTAGAGCAATGGCTGCATGGGGACGTTGGAGCTGTAAGCCCTTTGACATGGAACATACGGATGAAC

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G01540.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattgctacccatcttctgctaaatcctgacactgggttttcttgaggatccaaaaaactaacattttttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
                | |    |   |||    |   | || |   |  |   |||| | |   | |  | | ||     | | ||  ||  | |  |||||||| |||||||| | ||| ||||||||||||||||| || ||| |||| || ||||| || || |||||||| || || |||||||| || || || 
---------------gtatatataccgctgctcgtatctcttttccggtgttacaaaagcga---tgtcgtgacctaatgctgggttcgttactat--agGATGCTCGTGTATGACTTTGTCGACAATGGTAATTTGGAGCAATGGATTCACGGTGATGTTGGCGATGTCAGCCCGCTAACTTGGGATATACGTATGAAT

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G01330.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattgctacccatcttctgctaaatcctgacactgggttttcttgaggatccaaaaaactaacattttttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
|||     |   | |  | ||  |  | ||| || |  ||| || |    |         | |  |||  | |   || |  | |||    ||  ||||||||||| |||||||| || || || ||||| || ||||| || ||| ||||||||||||| || ||    || ||  |||| ||||||||||| || |||
gtaagaaaaagaaac--ccgc--atgcttgatacggactttgctcggtactt----gttttgaactttgataagtcttaacgtttttggaattcctctagGATGCTCGTGTATGACTACGTCGATAATGGCAACTTGGAGCAATGGATTCATGGGGATGTTGGTGATAAAAGTCCGTTGACTTGGGATATTCGTATGAAC

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S568_2V6.1 (Physcomitrella patens), 3'ss of exon 3
gtattgctacccatcttctgctaaatcctgacactgggttttcttgaggatccaaaaaactaacattttttcatctttcatttgttttttt----tttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
            | | | |  |   | |  ||   | |||||  || |    || ||  ||   |    | ||    | | ||  | | |      || | ||||||||||||||| ||||| ||||||||||| ||| |||| |||||||| |||||   | |     ||   | | | ||  |||||||   ||| ||    
--------gtgaagcatttattc--ttcccacctggagtttttgtgtgccagcacaattctcttacacgtgcaatgctaacttcgtctctcgtggcttttgtagGATGCTTGTGTACGAGTACGTGGACAATGGGAATCTGGAGCAGTGGCTACATGGACCTCTGTCACAAACAAACACACTTCCATGGGAAGCTCGCATGCGG

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S358_6V6.1 (Physcomitrella patens), 3'ss of exon 2
gt-attgctacccatcttctgctaaatcctgacactgggttttcttgaggatccaaaaaactaacattttttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
|| | ||  | ||  ||||| |     |       || ||  |   |  | |||   |   |    ||| || | ||    | || |   | ||     |||||||||||||| ||||| ||||| ||||| || ||||| |||||||| |||||   | |     ||   |   | ||  |||||||    || ||    
gtgaatgtcatcc--cttcttcctgcccagtttgttgtgtggtggcgcagctccttgatgttc---tttgttgacctcgtttctggtggctgtt---gcagGATGCTTGTGTACGAGTACGTGGATAATGGAAACTTGGAGCAGTGGCTGCATGGACCTCTGTCCCAAACAAATACACTTCCATGGGAAGCCCGCATGCGG

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ27863 (Selaginella moellendorffii), 3'ss of exon 3
gtattgctacccatcttctgctaaatcctgacactgggttttcttgaggatccaaaaaactaacattttttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
                                       |   | ||     ||  ||    | | |||||||  ||  ||  |      || |    |||||||| || |||||||| || |||||||||||| |||| ||||||||||| ||    |         ||| | |||  ||||||||  || |||| || 
--------------------------------------gtacgtcgaattctcatgaa----agagtttttcactttggat--gacgaacttctac--agGATGCTGGTATATGAGTACGTAGACAATGGTAATCTGGAGCAGTGGCTTCACGGCCCAGCCTCCATTCTCAACTCTCCAACATGGGAGGTTAGGATGAAA

upper sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ36811 (Selaginella moellendorffii), 3'ss of exon 3
gtattgctacccatcttctgctaaatcctgacactgggttttcttgaggatccaaaaaactaacattttttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
                                       |   | ||     |   ||    | |||||||||  ||  ||  |      || |    |||||||| || |||||||| || |||||||||||| |||| ||||||||||| ||    |         ||| | |||  ||||||||  ||||||| || 
--------------------------------------gtacgtcgaattctcgtgaa----agattttttcactttggat--gacgaacttctac--agGATGCTGGTATATGAGTACGTAGACAATGGTAATCTGGAGCAGTGGCTTCACGGCCCAGCCTCCATTCTCAACTCTCCAACATGGGAAGTTCGGATGAAA

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|161715232|gb|FC068017.1|FC068017
EST:     CACAAGAATCTTGTTAGGTTGCTGGGATACTGTGCTGAGGGAGCTTACAG                         GATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCT
genomic: CACAAGAATCTTGTTAGGTTGCTGGGATACTGTGCTGAGGGAGCTTACAGgtattgctac ... ttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaggatccaaaaaactaacattttttcatctttcatttgttttttttttgtctagGATGCTTGTGTATGAGTATGTGGACAATGGTAATTTGGACCAGTGGCTTCATGGGGATGTAGGGGAAGTCAGCCCTCTGACATGGGATATTCGGATTAAC
            aactaac  putative branch site (score: 1)
                  cattttttcatctttc  CT-rich tract
               taacattttttcatct  TA-rich tract