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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtagaagatccaacacttcctttcttgcctgcttcacaatgacattgtcaaaagtacgtcaatatatgtggaaaacaatggttttgtggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGCAATAAAGCTTGTTTGGTCGTGTCATAGAGAAATCATATATGATATTGGT

Basic information

species Vitis vinifera
transcript Vv17s0000g05800.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g05800.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA05G01290.1 (Glycine max), 3'ss of exon 15
gtatgtagaagatccaacacttcctttcttgcctgcttcacaatgacattgtcaa-aagtacgtcaata-tatgtggaaaacaatggttttgtggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGCAATAAAGCTTGTTTGGTCGTGTCATAGAGAAATCATATATGATATTGGT
       | | ||   | | ||  |||    | || || ||    ||||    || || |   ||  || | ||| ||||| |||  |||  | ||||||||||||| || || ||  | ||||| ||||||||||| || ||||| || ||||| ||||| ||||| || || |||||||| || |||||| |||| 
-------gtaaatt-gatattt--ttttaaacttgttttacctgtacataactaagaaatgattctttaatttgttgaaaataataatttcattgcagGTTTGGACCCGCTGGTGATGCTAGAGGTGCAGGAATTGGAACACCAGAGGCTATAAAACTTGTATGGTCTTGCCACAGAGAAATAATCTATGATTTTGGG

upper sequence: Vv17s0000g05800.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA17G10610.1 (Glycine max), 3'ss of exon 15
gtatgtagaagatccaacacttcctttcttgcctgcttcacaatgacattgtcaa--aagtacgtcaatatatgtggaaaacaatggttttgtggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGCAATAAAGCTTGTTTGGTCGTGTCATAGAGAAATCATATATGATATTGGT
       | | ||   | | ||  |||    | || || ||    ||||    ||  ||  | |      |  || ||||| |||  |||  | | ||||||||||| || || ||  | ||||| ||||||||||| || ||||| || ||||| ||||| ||||| || || |||||||| || |||||| |||| 
-------gtaaatt-gatattt--ttttcaacttgttttacttgtacataactaagaaatgatgctttagttagttgaaaataataatttcattgtagGTTTGGACCCGCTGGTGATGCTAGAGGTGCAGGAATTGGAACACCAGAGGCTATAAAACTTGTATGGTCTTGCCACAGAGAAATAATCTATGATTTTGGG

upper sequence: Vv17s0000g05800.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT5G62530.1 (Arabidopsis thaliana), 3'ss of exon 15
gtatgtagaagatccaacacttcctttcttgcctgcttcacaatgacattgtcaaaagtacgtcaatatatgtggaaaacaatggttttgtggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGCAATAAAGCTTGTTTGGTCGTGTCATAGAGAAATCATATATGATATTGGT
||  |  ||| |  || |||| ||    |    |   | |     |  |  |  |    | || ||  |||     |||||            |||||||||||| || |||||||| |||||||| || || ||||| ||||| || |||||||| |||||||| || || |||||| |||| || |||  ||||
gtgagaggaaaaatca-cactcccaaattaaagtatct-atttctatttctttgaggaaaagttaaactatcatataaaca------------cagGTTTGGACCTGCGGGGGACCCGAGAGGGGCCGGGATAGGGACACCAGAGGCTATAAAGCTGGTTTGGTCATGCCACAGAGAAGTCATCTACGATTATGGT

upper sequence: Vv17s0000g05800.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: PP1S41_177V6.1 (Physcomitrella patens), 3'ss of exon 16
gtatgtagaagatccaacacttcctttcttgcctgcttcacaatgacattg--tcaaaagtacgtcaatatatgtggaaaacaatggttttgt--ggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGCAATAAAGCTTGTTTGGTCGTGTCATAGAGAAATCATATATGATATTGGT
  |   |   | |  | ||| |      |       |||| |||||||     |     |  | | | | |       | |   || |||  |    ||||||||| ||||| || || ||  | || || || |||||||| || ||||| ||||||||||| |||||||||||| | ||||| ||  | ||| |||| 
caaatcacttgctgtaccacgttaacgttccaaatgttcaaaatgacaaaagctttgtggacctttagtttcaacaatagattttgttttctttaaacagGTTTGGGCCAGCTGGAGATCCCCGTGGAGCGGGGATTGGGACACCTGAAGCTATAAAGCTTGTATGGTCGTGTCATCGTGAAATTATCCAAGATGTTGGA

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|33402546|gb|CF208173.1|CF208173
EST:     ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTG                         GTTTGGGCC-GACAGNGGACCCAAGAGGGGCAGGAATTGGGACCCCAGAAG
genomic: ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTGgtatgtagaa ... tttgtggcagGTTTGGACCAG-CAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAG
EST: gi|110428757|gb|EC995236.1|EC995236
EST:     ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTG                         GTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGC
genomic: ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTGgtatgtagaa ... tttgtggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGC
EST: gi|110380514|gb|EC945785.1|EC945785
EST:     ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTG                         GTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGC
genomic: ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTGgtatgtagaa ... tttgtggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGC
EST: gi|26264607|gb|CA815670.1|CA815670
EST:     ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTG                         GTTTGGGCCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACCCCAGAAGC
genomic: ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTGgtatgtagaa ... tttgtggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGC
EST: gi|27582713|gb|CB005408.1|CB005408
EST:     ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTG                         GTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGC
genomic: ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTGgtatgtagaa ... tttgtggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGC
EST: gi|351025255|gb|FQ434268.1|FQ434268
EST:     ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTG                         GTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGC
genomic: ACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTGgtatgtagaa ... tttgtggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgacattgtcaaaagtacgtcaatatatgtggaaaacaatggttttgtggcagGTTTGGACCAGCAGGGGACCCAAGAGGGGCAGGAATTGGGACGCCAGAAGCAATAAAGCTTGTTTGGTCGTGTCATAGAGAAATCATATATGATATTGGT
                     tcaatatat  TA-rich tract