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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgttcatccattaaatctttttccttacaacttaagatttggcgtctatataataaagatgacttagaaatttctttccaagtaattttcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGGACACTCTTGGTGCATTAGCCTTGGCTACAGAGGCTCCAACTGATGGCCT

Basic information

species Vitis vinifera
transcript Vv13s0158g00360.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0158g00360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os05g41580.1 (Oryza sativa), 3'ss of exon 5
gtgcgttcatccattaa--atctttttccttacaacttaagatttggcgtctata----taataaagatgacttagaaatttctttccaagtaattttcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGGACACTCTTGGTGCATTAGCCTTGGCTACAGAGGCTCCAACTGATGGCCT
 |   |  ||| | | |  ||   | | | ||   ||   |  || |  || |||       |  | |  | ||      |  | | |   | | ||  |||   ||| || ||||||||||| |||||||| |||||||| ||||| ||||| ||  | || || || ||||| || |||||  | |||| ||| |   |
-tagatatatctactgattattcctattcctattcctatggtatttgattccataacgccggtctataataattgtcctctcttcttccctttacttgaagGGAGTGCACCACTTACTGCTGTTCAGTTGCTATGGGTGAACATGATTATGGATACGTTGGGAGCCTTGGCCTTAGCCACAGAACCACCAAATGACGAAAT

upper sequence: Vv13s0158g00360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G305159_T02 (Zea mays), 3'ss of exon 6
gtgcgttcatccattaaatctttttccttacaacttaagatttggcgtctatataataaagatgacttagaa----atttctttccaagtaattttcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGGACACTCTTGGTGCATTAGCCTTGGCTACAGAGGCTCCAACTGATGGCCT
||| |   ||| | | | |        | |   |||    ||  || | | | |  |   ||||  ||   |    ||    ||  || |||  |  |||  |||| || |||||||| ||||||||||| |||||||| ||||||||||| ||  | || || || ||||| || |||||| | || |  ||||   |
gtgtgcaaatctaatca-tgaccgctatgaagtcttcgttttctgcatgttttttttgtggatggattcatacattatccactttgaactaacatgtagGTACTGCACCACTTACTGCCGTCCAGTTGCTATGGGTGAACATGATCATGGATACATTAGGAGCCTTGGCCTTAGCGACAGAGCCGCCTAACGATGAAAT

upper sequence: Vv13s0158g00360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G01360.1 (Glycine max), 3'ss of exon 6
gtgcgttcatccattaaatctttt-------tccttacaacttaagatttggcgtcta-tataataaagatgacttagaaatttctttccaagtaattttcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGGACACTCTTGGTGCATTAGCCTTGGCTACAGAGGCTCCAACTGATGGCCT
||   | ||| ||   ||  ||||       || || ||  | |    |     | || |  |||  |||||||| |     |     |  | |   ||||||| |||||||||||||||||||| ||  |||| ||||| || |||||||||||||| || || ||||| ||  ||||||||||  ||||   |||||| ||
gta-atacatacagctaactttttaagacgatcttttcaggtcatagctaaatatttagttcaatttagatgactaa-----tcacagcagaatccatttcagGTTCTGCTCCTCTTACTGCTGTTCAAATGCTTTGGGTAAACATGATCATGGACACCCTGGGCGCATTGGCACTGGCTACAGAACCTCCTCATGATGGGCT

upper sequence: Vv13s0158g00360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G35970.1 (Glycine max), 3'ss of exon 5
-------gtgcgttcatccattaaatctttttccttacaacttaagatttggcgtctatataataaagatgacttagaaatttctttccaagtaattttcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGGACACTCTTGGTGCATTAGCCTTGGCTACAGAGGCTCCAACTGATGGCCT
        | |    | |  || ||   | |   ||    |   ||||      |   |  |||  ||||||||    |||  |     || |   ||||||| || ||||||||||||||||| ||  |||| ||||| || |||||||||||||| || || ||||| ||  ||||||||||  ||||   |||||| ||
gtaatacatacagctagcttttcaagactatcttttcaggccatagataaatttttggttcaattcagatgact----aatcacagcagaaatccatttcagGCTCAGCTCCTCTTACTGCTGTTCAAATGCTTTGGGTAAACATGATCATGGACACCCTGGGAGCATTGGCACTGGCTACAGAACCTCCTCATGATGGGCT

upper sequence: Vv13s0158g00360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G41560.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgcgttcatccattaaatctttttccttacaacttaagatttggcgtctatataataaagatgacttagaaatttctttccaagtaattttcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGGACACTCTTGGTGCATTAGCCTTGGCTACAGAGGCTCCAACTGATGGCCT
    || |  | |  ||| |   |     || |  |    | | |||| |    ||  |   | ||      ||||||||     |  ||| ||||||||||||| || |||||||| ||  |||| ||||| || |||||||||||||| ||||||||||| ||  | || |||||  |||| | ||| ||  |
----gtacgac-agaaaaaccaatcaaacaccatctttcttctagcgtttggtcaaatatagtaacc-----atttcttttggtttcttttccagGATCTGCTCCACTCACTGCTGTGCAACTGCTTTGGGTCAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCAACAGAACCTCCCAATGAAGGTTT

upper sequence: Vv13s0158g00360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgcgttcatccattaaatctttttcct-tacaacttaagatttggcgtctatataataaagatgacttagaaatttctttccaagtaattttcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGGACACTCTTGGTGCATTAGCCTTGGCTACAGAGGCTCCAACTGATGGCCT
         |   | |||||     | |  |||| ||          |  | |  |||||   |   | || |||   | |        |||||||||||||| || || || || || ||  |||| |||||||| |||||||||||||| ||||||||||| ||  | || || ||  |||| |  || ||  |
--------gtaagtaaaatcaaacacatgcacaattttca--ccaatgatttttgaataacagt--ttcagtaatgattgttttgcaccttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT

upper sequence: Vv13s0158g00360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ18007 (Selaginella moellendorffii), 3'ss of exon 3
gtgcgttcatccattaaatctttttccttacaacttaagatttggcgtctatataataaagatgacttagaaatttctttccaagtaattt-tcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGGACACTCTTGGTGCATTAGCCTTGGCTACAGAGGCTCCAACTGATGGCCT
                  |    ||| ||||   ||||| | | | ||||       | |  ||||||     ||||||  |  ||  ||  |||||  | ||||| || |||||||| ||| |||| ||||||||| |||||||||||||  | |||||  | ||  |||| || ||| | || || ||||  ||
-----------------gtaagattctttactctttaagttcttgggtct------catatgtgactt-----tttcttctcttgtcgttgatcagGGACGGCTCCGCTCACTGCTGTGCAGCTGCTGTGGGTGAATCTGATCATGGACACGTTGGGTGCTCTTGCTCTGGCAACCGAGCCACCGACGGATGATCT

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|37188333|gb|CF607682.1|CF607682
EST:     TTGCTCTCATGATCAACTTTGTTTCTGCATGCATCTCAG                         GATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGG
genomic: TTGCTCTCATGATCAACTTTGTTTCTGCATGCATCTCAGgtgcgttcat ... taattttcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggcgtctatataataaagatgacttagaaatttctttccaagtaattttcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGGACACTCTTGGTGCATTAGCCTTGGCTACAGAGGCTCCAACTGATGGCCT
                                                ttttc  CT-rich tract
         tatataataaagatga  TA-rich tract