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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacttgaatgctttattttctttgtactagtggtaacgcctagttttactatcagaaaatattatttgaagtaatacattgcattctcctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCTAAATGTGGTTGCCTTTTGTCATCTCCAAGGTGTTGTGCACCGTGATCTA

Basic information

species Vitis vinifera
transcript Vv16s0098g01140.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g36710.1 (Oryza sativa), 3'ss of exon 3
gtaaacttgaatgctttattttctttgtactagtggtaacgcctagttttactatcagaaaatattatttgaagtaatacattg-cattctcctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCTAAATGTGGTTGCCTTTTGTCATCTCCAAGGTGTTGTGCACCGTGATCTA
           |  | ||||||  |||        | |||   |   | | | | |  |||  | |||||    ||||||| || |  |  ||  ||  |||||||| |||||||  || ||||||||||||| ||| ||||  |||||  ||||||| ||| | || || ||||| ||||| ||||| ||||||||| | 
----------gtattgtatttttcttg-------agaaacattt---tctgcaaaccaaaacaagtatttcgc-taatacagtgtcgcttgccctttttagAGGTGGGAGATACACTGAGGAAGATGCTAAAGTTATCGTTGAACAAATATTAAATGTTGTTTCTTTCTGCCATCTTCAAGGCGTTGTTCACCGTGATTTG

upper sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G031893_T01 (Zea mays), 3'ss of exon 3
gtaaacttgaatgctttattttctttgtactagtggtaacgcctagttttactatcagaaaatattatttgaagtaatacattgcattct-cctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCTAAATGTGGTTGCCTTTTGTCATCTCCAAGGTGTTGTGCACCGTGATCTA
           |  |  ||||||||   |  | |  |  |||  |     || |  | ||  | |   ||    |  |||| | |  |||   | || |||||||||||||||||  ||||  ||||| |||  ||||||||  || ||  |||| || ||||||||||| ||||| || |||||||| ||||||||||| 
----------gtattacattttcttgaga--aatcatttcgcgaa----caccactacaaggtgtagctt----tgttacagtactgtctgttttttgcagAGGTGGAAGATACAATGAAGGGGATGCAAAAATTATTGTTGAACAGATATTAAAAGTAGTTGCCTTTTGCCATCTTCAGGGTGTTGTTCACCGTGATCTG

upper sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G100560_T02 (Zea mays), 3'ss of exon 3
---gtaaacttgaatgctttattttctttgtactagtggtaacgcctagttt-tactatcagaaaatattatttgaagtaatacattgcattct-cctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCTAAATGTGGTTGCCTTTTGTCATCTCCAAGGTGTTGTGCACCGTGATCTA
    || | |    | |    | ||   | | || | |  | |   | |      | |  | ||  | |   ||    |  |||| | |  |||   | || |||||||||||||||||  ||||  ||||| |||  ||||||||  || ||  |||| || ||||||||||| ||||| || |||||||| ||||||||||| 
tggatagaatcttgt-ccaggtattacattttcttgagaaatcattttgcgaacgccactacaaggtgtagctt----tgttacagtactgtctgttttttgcagAGGTGGAAGATACAATGAAGGGGATGCAAAAATTATTGTTGAACAGATATTAAAAGTAGTTGCCTTTTGCCATCTTCAGGGTGTTGTTCACCGTGATCTG

upper sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G138245_T01 (Zea mays), 3'ss of exon 3
gtaaacttgaatgctttattttctttgtactagtggtaacgcctagttttactatcagaaaatattatttgaagtaatacattgcattctcctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCTAAATGTGGTTGCCTTTTGTCATCTCCAAGGTGTTGTGCACCGTGATCTA
           |  || ||||||||  ||    |  |     | |     |||| ||   | ||   ||||    | |||  ||| | ||  |  | |||||||||||||||||  ||||  ||||| |||  ||||||||  || ||  |||| || ||||||||||| ||||| || |||||||| ||||||||||| 
----------gtatttcattttcttgataaacattttg----caaacacaacta-caaggagtagc-tttgttacagtac--tgcctgctttt--tgcagAGGTGGAAGATACAATGAAGGGGATGCAAAAATTATTGTTGAACAGATATTAAAAGTAGTTGCCTTTTGCCATCTTCAGGGTGTTGTTCACCGTGATCTG

upper sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G100560_T01 (Zea mays), 3'ss of exon 3
gtaaacttgaatgctttattttctttgtactagtggtaacgcctagttttactatcagaaaatattatttgaagtaatacattgcattct-cctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCTAAATGTGGTTGCCTTTTGTCATCTCCAAGGTGTTGTGCACCGTGATCTA
           |  |  ||||||||   |  | |  |   ||  |      | |  | ||  | |   ||    |  |||| | |  |||   | || |||||||||||||||||  ||||  ||||| |||  ||||||||  || ||  |||| || ||||||||||| ||||| || |||||||| ||||||||||| 
----------gtattacattttcttgaga--aatcattttgcgaa----cgccactacaaggtgtagctt----tgttacagtactgtctgttttttgcagAGGTGGAAGATACAATGAAGGGGATGCAAAAATTATTGTTGAACAGATATTAAAAGTAGTTGCCTTTTGCCATCTTCAGGGTGTTGTTCACCGTGATCTG

upper sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G40920.1 (Glycine max), 3'ss of exon 3
gtaaacttgaatg-ctttattttctttgtactagtggtaac------gcctagttttactatcagaaaatattatttgaagtaatac-------attgcattctcctg--------------ttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCTAAATGTGGTTGCCTTTTGTCATCTCCAAGGTGTTGTGCACCGTGATCTA
||||| ||||| | || | |||  ||||||||    |||        | |      ||||  ||||   | | ||||  | ||| |        | |||||| |  ||              ||| |||||||||||||||  ||| || || |||||||||||| |||| ||||||||| |||| ||||| ||||||||||| ||||| || || ||||||||||||
gtaaaattgaaaggctatttttcatttgtactgtctgtagtttttttgtccctccatacttacagaggtt-tgattttgaataacatgattataactgcattgttttgatgttaattatttgttaaagAGGTGGAAGATACCCAGAGGATGACGCTAAAGCTATTCTTGTACAAATTCTAGATGTAGTTGCGTTTTGTCATCTACAAGGAGTAGTTCACCGTGATCTA

upper sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G13920.1 (Glycine max), 3'ss of exon 3
-----------------------------gtaaacttgaatgctttattttctttgtactagtggt---aacgcctagttttactatcagaaaatattatttgaagtaatacattgc-attctcctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCTAAATGTGGTTGCCTTTTGTCATCTCCAAGGTGTTGTGCACCGTGATCTA
                                | ||  | |  |||  |  ||   ||||     |    | |  | |||||  ||| | |  ||  ||  || | |  |    ||  | |    | ||| ||||||||||||||   ||| || ||||||||||||||| |||| ||||||||| |||| ||||| ||||||||||| ||||| || || || |||||||||
gtaaaattgaaaggctatttttcatttgtactatctgtagtttttttgtccctccatactttcctttcagaagtttggttttg-tataacatgattataactggattgttttgatgttaattattttttaaagAGGTGGAAGATATCCAGAGGATGATGCTAAAGCTATTCTTGTACAAATTCTAGATGTAGTTGCGTTTTGTCATCTTCAAGGAGTAGTTCATCGTGATCTA

upper sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G49370.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------gtaaacttgaatgctttattttctttgtactagtggtaacgcc-tagttttactatcagaaaatattatttgaagtaatacattgcat-tctcctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCTAAATGTGGTTGCCTTTTGTCATCTCCAAGGTGTTGTGCACCGTGATCTA
                       |    ||     ||| | |||     ||||   | ||| |   ||  |||    |    | ||||         |  |    ||  | | || |  |  ||||||||  ||||    |||| ||| |||||   |||| |||| || ||| ||  ||    ||| ||||  ||||| ||||||||||||||||||||||| 
gtaaaatcaaaactagtcctttttctgttttccaccttgaattttggcatacttaggttaaagaggtaactttgtgttgcatatatatggaggatgattctgtgatgtctatatcttactgtagAGGTGGTCGATATCCGGAAGCAGAAGCTAAGCGTATTCTTGTACAGATTTTATCTGCAACTGCTTTTTTCCATCTTCAAGGTGTTGTGCACCGTGATCTG

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|110720801|gb|EE097051.1|EE097051
EST:     ATTATGTGAAGGTGGAGAACTACTAGACAGGATTTTATCAAG                         AGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCT
genomic: ATTATGTGAAGGTGGAGAACTACTAGACAGGATTTTATCAAGgtaaacttga ... cctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCT
EST: gi|30126117|gb|CB911456.1|CB911456
EST:     ATTATGTGAAGGTGGAGAACTACTAGACAGGATTTTATCAAG                         AGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCT
genomic: ATTATGTGAAGGTGGAGAACTACTAGACAGGATTTTATCAAGgtaaacttga ... cctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttactatcagaaaatattatttgaagtaatacattgcattctcctgttacagAGGTGGAAGATACAGAGAAGAAGATGCTAAAGCTATTGTTGTGCAAATTCTAAATGTGGTTGCCTTTTGTCATCTCCAAGGTGTTGTGCACCGTGATCTA
                                         ttctcctgtt  CT-rich tract
       tatcagaaaatattat  TA-rich tract