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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctactttacaccattctttttatggtagatcagctcggtgccttggacatcttctcctactcaatctagtaatgttggcatctagttcttgcttcagctcatttcatccatcattttgattgccattgtttccatgaacagTGTCAGAGTGGGCTAAGGAAGCCCTTTTAGGTCTTGGAAAGGGGGCTCCTTTTTCTCTTTGTTTAACACAAAAGCATTTCTCCAGAGTTGCTTTGGCACG

Basic information

species Vitis vinifera
transcript Vv11s0016g04290.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g04290.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G047564_T02 (Zea mays), 3'ss of exon 7
------------------------gtaagctacttt----acaccattctttttatggtagatcagctcggtgccttggacatcttctcctactcaatcta-gtaatgttggcatctagttc-----ttgcttcagc-----tcatttcatccatcattttgattgccattgtttccatgaacagTGTCAGAGTGGGCTAAGGAAGCCCTTTTAGGTCTTGGAAAGGGGGCTCCTTTTTCTCTTTGTTTAACACAAAAGCATTTCTCCAGAGTTGCTTTGGCACG
                         ||    || ||    |||| | | | ||  |   |   || ||     | ||  | |   || ||||||   | |  |  ||||  | || || | |     | |||| ||      | | | |||  |     || | ||    | |         ||||| |||| ||||| || |||||  |   |||  |||  || || ||||| |||||||||||||||||||| |||||||||||   |||||| |  |||  
gtacccgctatgaaacattcccttttagtgcaccttggcaacactaatgtattactcacatg-caactgttgacttttaaaaaactcccctactttctttgtgctatgtaagaatttaatgcaatagtggcttaagaagggataactgcatttacacacttaactgttcctctggtggctg-cagTGGCAGAATGGGCCAATGAAGCTTTAGCAGGAATTGAGAAAGGCGCTCCATTTTCTCTTTGTTTAACACAGAAGCATTTCTCTCAAGTTGCATCAGCATA
















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|110699628|gb|EE076795.1|EE076795
EST:     TGAGATTATAGAAGAGCTGAAAAAGCATCAGCTTAGCACTGATGCTATAG                         TGTCAGAGTGGGCTAAGGAAGCCCTTTTAGGTCTTGGAAAGGGGGCTCCTT
genomic: TGAGATTATAGAAGAGCTGAAAAAGCATCAGCTTAGCACTGATGCTATAGgtaagctact ... ccatgaacagTGTCAGAGTGGGCTAAGGAAGCCCTTTTAGGTCTTGGAAAGGGGGCTCCTT
EST: gi|110363815|gb|EC927434.1|EC927434
EST:     TGAGATTATAGAAGAGCTGAAAAAGCATCAGCTTAGCACTGATGCTATAG                         TGTCAGAGTGGGCTAAGGAAGCCCTTTTAGGTCTTGGAAAGGGGGCTCCTT
genomic: TGAGATTATAGAAGAGCTGAAAAAGCATCAGCTTAGCACTGATGCTATAGgtaagctact ... ccatgaacagTGTCAGAGTGGGCTAAGGAAGCCCTTTTAGGTCTTGGAAAGGGGGCTCCTT
EST: gi|110399519|gb|EC966027.1|EC966027
EST:     TGAGATTATAGAAGAGCTGAAAAAGCATCAGCTTAGCACTGATGCTATAG                         TGTCAGAGTGGGCTAAGGAAGCCCTTTTAGGTCTTGGAAAGGGGGCTCCTT
genomic: TGAGATTATAGAAGAGCTGAAAAAGCATCAGCTTAGCACTGATGCTATAGgtaagctact ... ccatgaacagTGTCAGAGTGGGCTAAGGAAGCCCTTTTAGGTCTTGGAAAGGGGGCTCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgcttcagctcatttcatccatcattttgattgccattgtttccatgaacagTGTCAGAGTGGGCTAAGGAAGCCCTTTTAGGTCTTGGAAAGGGGGCTCCTTTTTCTCTTTGTTTAACACAAAAGCATTTCTCCAGAGTTGCTTTGGCACG
                           ttttgat  putative branch site (score: 4)
                                       ttgtttcc  putative PPT
                          attttgatt  TA-rich tract