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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttatgataccctccctcatggcttttaaattattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC

Basic information

species Vitis vinifera
transcript Vv14s0060g01510.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
--gtatgttatgataccctccctcatggcttttaaattattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC
  || ||  |  | |   |   |       | |      |||| ||  | |||  ||||      |   || || |     ||||  ||||||| ||||| || ||||| || ||||||||||| ||||| || || || || || ||||| || ||||||||||||||||| ||  | |||||||| ||||
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatgg-atttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 3
gtatgttatgataccctccctcatggcttttaaattattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC
|||||||    ||   |    | |   |  |    |      ||  | ||||  || |||   | |||| | |||       |  ||||||| ||||||||||||||||||||||| ||||||||||| || || || || || ||||| || ||||||||||||||||| ||  | |||||||| ||||
gtatgttgatttaatataaaccttatatcctgttgttgctggatgaaaatgaatttctcatcagctttg-taattc------ttttgtagTTCGAAGCAGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTC

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 3
gtatgttatgataccctccctcatggcttttaaattattcata---ttgatat-gatattttcagacgatttgattat----ttgaaaaatcct--gtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC
 |  |   | | |   | | | |  | ||||  | ||  |||      | | | | |   |  | | || ||  | ||    || | || || |  |||||||||||| ||||||||||||||||| ||||||||||| || || || || || ||||  || ||||| ||||||||||| ||  | |||||||| ||||
tttggcgcttaaaaggtgcttaagcgattttttagtaaccatgaccccgttgtcgctggatgaaaatgaatttctcatgagctttataattcttttgtagTTTGAAGCCGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGCTGTTATTGACCATGGGGCTGTTCCTATATTTGTGAAGCTTC

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G39210.1 (Glycine max), 3'ss of exon 4
gtatgttatgataccctccctcatggcttttaaattattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC
|| ||||||  | || |   | |     | |||   ||  || |   | || |  |||    |  |    || |||||    |  |||||||||| ||||| |||||| | ||||| || |||||||| |||||||| |||||||||||| ||||||||||||| ||||||||  | ||||| || || |
gtttgttatc-tgccttgttttactttatgtaatcaatatatttatctttgcttatttatagccttgactttgtttgatttttgttgtagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACATCTGAAAACACTAAGGTGATAATTGATCATGGTGCTGTCCCAATTTTTGTAAAGCTAC

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G41770.1 (Glycine max), 3'ss of exon 3
gtatgttatgataccctccctcatggcttttaaattattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC
|| ||||||     |||   | |     |||||   ||  || |   | || |  |||    |  |    || ||| |    |  |||||||||| ||||| |||||| | ||||| || |||||||| || ||||| ||||| |||||||||||||||||||| ||||||||  | ||||| || || |
gtttgttat--ctgccttgtttactttatttaatcgatatatttatctttgcttatttatttccttgactttgtttaatgtttgttgtagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACTTCTGAAAACACCAAGGTGGTAATTGATCATGGTGCTGTCCCAATTTTTGTAAAGCTCC

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G38320.1 (Glycine max), 3'ss of exon 3
gtatgttatgataccctccctcatggcttttaaattattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC
    ||| ||      ||  |  ||  | || ||||| | || |  ||||    | |   || | || |  ||||     |||  || ||||||| ||||| |||||| | ||||| || ||||||||||| ||||| ||||| ||||| || |||||||| |||||||||||  | || ||||| || |
----gtt-tgtacttgtctattttgtttattcaattagtgatttgaatattgcttatggtgatg-ttggtctatt----gaatgttgcagTTTGAGGCAGCCTGGGCTTTGACAAATATAGCTTCTGGGACGTCTGAAAACACCAAGGTTGTCATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 3
gtatgttatgataccctccctcatggcttttaaattattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC
        |  ||     |    | | |||| ||||| | || |  || | |  | |   || | ||||  ||||      ||  || ||||||| ||||| |||||| | ||||| || |||||||| || ||||| ||||| ||||| || |||||||| |||||||||||  | || ||||| || |
------gtttgtatttgtctgttttgtttttgaattagtgatttcaatgttacttatggtgatg-tttgtctatt----gcatgttgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAACACAAAGGTTGTGATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC

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|110359173|gb|EC920237.1|EC920237
EST:     TTCCTCGCTTTGTTGAGTTTCTTGTGAGGGAGGACTTCCCACAGCTTCAA                         TTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAAC
genomic: TTCCTCGCTTTGTTGAGTTTCTTGTGAGGGAGGACTTCCCACAGCTTCAAgtatgttatg ... aatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC
                             atttgattatttgaaa  TA-rich tract