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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctatccatcattatactgtctgtacattaacaaagacgaaaagtgctttgagacctcttgcttctgtttaagggttctcatttcaggtgtgattttccttattaagagttttcagactacttatatggtttgaatctgggtccagGTATTCAGACTAGTGAAGACTATAAGTTCTATGCAATCTCAGCTGAGTTCCCTGAATTCAGTAACAAGGATAAGACTTTGGTTTTCCAGTTTTCTGTTAA

Basic information

species Vitis vinifera
transcript Vv07s0005g01390.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g01390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G074687_T01 (Zea mays), 3'ss of exon 2
gtatgctatccatcattatactgtctgtacattaacaaagacgaaaagtgctttgagacctcttgcttctgtttaagggttctcatttcaggtgtgattttccttattaagagttttcagactacttatatggtttgaatctgggtccagGTATTCAGACTAGTGAAGACTATAAGTTCTATGCAATCTCAGCTGAGTTCCCTGAATTCAGTAACAAGGATAAGACTTTGGTTTTCCAGTTTTCTGTTAA
                                                                                  | |||  |   || |      |  | |     ||||||  || |  | |  |  |  ||  | | |||||||||| ||    || ||||| | ||||||||| || |||||||| | |||||||||||| ||||||||||||||  ||||  | ||||| ||||| ||
--------------------------------------------------------------------------------gttaattcaaaacgtcagaagaatggtga-----tttcagtttattagt-taatacgtttcatgttgcagGTATTCAAACCTCCGAGGACTACAGGTTCTATGCCATTTCAGCTGAATACCCTGAATTCAGCAACAAGGATAAGACCCTGGTGCTGCAGTTCTCTGTGAA

upper sequence: Vv07s0005g01390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G28890.1 (Glycine max), 3'ss of exon 2
gtatgctatccatcattatactgtctgtacattaacaaagacgaaaagtgctttgagacctcttgcttctgtttaagggttctcatttcaggtgtgattttccttattaagagttttcagactacttatatggtttgaatctgggtccagGTATTCAGACTAGTGAAGACTATAAGTTCTATGCAATCTCAGCTGAGTTCCCTGAATTCAGTAACAAGGATAAGACTTTGGTTTTCCAGTTTTCTGTTAA
              | || | ||    ||  || | | || ||   | |    |   |  | |||||  ||||||     | |  ||| |  | ||||       |||||||  | |  |  |   |     |||   ||||  |  |||||||||| || ||||| || || |  |||||||| || |||||||||| |||||||||||| ||||||| ||||||  | || || || |||||||||||
----------gtaaactaaattgc---tatgttga-atagtcgggtattatactattat-tgttgctcatgttta----cttttgtttaaaat-tgat-------attaagatatgtttggttgaat-----gttgatatctctg--cagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACCCTGAATTCAGCAACAAGGGTAAGACACTAGTCTTTCAATTTTCTGTTAA

upper sequence: Vv07s0005g01390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G23080.2 (Glycine max), 3'ss of exon 2
gtatgctatccatcattatactgtctgtacattaacaaagacgaaaagtgctttgagacctcttgcttctgtttaagggttctcatttcaggtgtgattttccttattaagagttttcagactacttatatggtttgaatctgggtccagGTATTCAGACTAGTGAAGACTATAAGTTCTATGCAATCTCAGCTGAGTTCCCTGAATTCAGTAACAAGGATAAGACTTTGGTTTTCCAGTTTTCTGTTAA
                      ||      | |  | |    ||| |||  | |   |  |||||||  ||||||    || |    | |  | ||||       |||||||  | |  |  |  |       | |  || |   | |||||||||| || ||||| || || |  ||||| || || |||||| ||| |||||||||||| ||||||||||||||  | || ||||| |||||||| ||
----------------------gtaaactaaattgctatattgaacagtcttgtattatttcttgctcatgttta----tttttggctaaaat-tgat-------attaagatatgtttgttt-ttggctgaatgttgatatctatgcagGTATTCAAACCAGTGAGGATTACAGATTCTACGCTATTTCAGCTCAGTACCCTGAATTCAGCAACAAGGATAAGACACTAGTCTTCCAATTTTCTGTCAA

upper sequence: Vv07s0005g01390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G09210.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgctatccatcattatactgtctgtacattaacaaagacgaaaagtgctttgagacctcttgcttctgtttaagggttctcatttcaggtgtgattttccttattaagagttttcagactacttatatggtttgaatctgggtccagGTATTCAGACTAGTGAAGACTATAAGTTCTATGCAATCTCAGCTGAGTTCCCTGAATTCAGTAACAAGGATAAGACTTTGGTTTTCCAGTTTTCTGTTAA
                                               ||    |    |||   |      |   ||  |  | ||||   || | |    | |     |  |  ||    | | |   || || ||          ||||||| ||||| ||||||||||| |  ||||| || || |||||||||||||||||||||||||||||||| ||||| || || ||||| || || || ||
-----------------------------------------------gtatgattcagccttcagagctaatcacagaatcattatttattgttttacaagcttgtgctaatgcgttgttgcaattgccattgtctgg---------cagGTATCCAGACCAGTGAAGACTACAGATTCTACGCCATTTCAGCTGAGTTCCCTGAATTCAGTAACAAGGACAAGACCTTAGTCTTCCAATTCTCAGTCAA

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|110688744|gb|EE067648.1|EE067648
EST:     GCAATGGAACTACACTTCCGGGAAATGGAGTGGGGACCTGAATGATAAAG                         GTATTCAGACTAGTGAAGACTATAAGTTCTATGCAATCTCAGCTGAGTTCC
genomic: GCAATGGAACTACACTTCTGGGAAATGGAGTGGGGACCCGAATGATAAAGgtatgctatc ... ctgggtccagGTATTCAGACTAGTGAAGACTATAAGTTCTATGCAATCTCAGCTGAGTTCC
EST: gi|110703029|gb|EE079515.1|EE079515
EST:     GAATGATAAAG                         GTATTCAGACTAGTGAAGACTATAAGTTCTATGCAATCTCAGCTGAGTTCC
genomic: GAATGATAAAGgtatgctatc ... ctgggtccagGTATTCAGACTAGTGAAGACTATAAGTTCTATGCAATCTCAGCTGAGTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattttccttattaagagttttcagactacttatatggtttgaatctgggtccagGTATTCAGACTAGTGAAGACTATAAGTTCTATGCAATCTCAGCTGAGTTCCCTGAATTCAGTAACAAGGATAAGACTTTGGTTTTCCAGTTTTCTGTTAA
        ttattaagagtttt  TA-rich tract