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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctctccttctttttgtccggctctgttcctagttcgtacttaatctaatatcactttgatcgttgttatattttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCCATTCCAAATCAACAGATAATCACCAAACTGGAAAGGGCTCTTGGTGTGA

Basic information

species Vitis vinifera
transcript Vv19s0014g01260.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g01260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
-------------------------gtatctctccttctttttgtccggctctgttccta--gttcgtacttaatctaatatcactttgatcgttgttatattttgca----gATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCCATTCCAAATCAACAGATAATCACCAAACTGGAAAGGGCTCTTGGTGTGA
                           |  |  |   | ||   |     | |    |      ||| || ||  ||||  |     | |    || | | |||||||    |||||| |||||||||||||| ||||| || ||||| |||||||| ||||| ||||| || || ||||| |||   || || ||||||||||||||    |
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA

upper sequence: Vv19s0014g01260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G101480_T01 (Zea mays), 3'ss of exon 3
-gtatctctccttctttttgtccggctctgttcctagttcgtacttaatctaatatcactttgatc---------------gttgttatatt--ttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCCATTCCAAATCAACAGATAATCACCAAACTGGAAAGGGCTCTTGGTGTGA
    ||| | ||  | ||      | ||  ||  ||| | | |  ||   | ||      |||  |               | | |  | ||  ||||||||||| ||||||||||| || ||||| || |||||||||||||| || || ||||| || || ||||| ||   ||| || || ||||| || ||   ||
aaagtctatgctgttgttgtagtagttccattgatagctgggaagtagcttgatccttggttggcctctttatgagatgaggatatggtgttcattgcagATGATCAATGAGAAGCCACAGGTGATCCAGGAGTATGAGTCAGGCAAGGCAATTCCCAACCAGCAGATCATTGGCAAGCTCGAGAGGGCCCTGGGAACGA

upper sequence: Vv19s0014g01260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G42890.1 (Glycine max), 3'ss of exon 3
gtatctctccttct-ttttgtccggctctg----ttcctagttcgtacttaatctaatatcactttgatcgttgttatattttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCCATTCCAAATCAACAGATAATCACCAAACTGGAAAGGGCTCTTGGTGTGA
||||  ||| |  | | || || | ||||     |||||  || ||| |||  | | ||||| |  |||     || |   |||||| |||| ||||||||||| |||||||| || |||||||||||||| || ||||||||||| || |||||||| | |||  ||||||| |||||||| |  |
gtattgctcgtcgtatattatcggtctctttattttccttattagtatttaggc-attatcaat--gatgtgcattgttacttgcagCTGATCAATGAGAAGCCTCAAGTGATCCAGGAGTATGAGTCAGGGAAGGCCATTCCAAACCAGCAGATAATTAGCAAGTTGGAAAGAGCTCTTGGAGCTA

upper sequence: Vv19s0014g01260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G42900.1 (Glycine max), 3'ss of exon 3
--------------------gtatctctccttcttt-ttgtccggctctgttcctagttcgtacttaatctaatatca-ctttgatcgttgttatattttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCCATTCCAAATCAACAGATAATCACCAAACTGGAAAGGGCTCTTGGTGTGA
                    | ||   |  |  | | |  ||   |||| |   |   |  |    |||     || | |  |||      || |   |||||| |||| ||||||||||| |||||||| || ||||| ||||||||||| ||||||||||| || ||||||||   |||  ||||||| || ||||| |  |
gtattactctcccttcagtagaattatttttaatatatcatcgatctctttatttttcttattagcaattaggcattatcaatgacgtgcattgttacttgcagCTGATCAATGAGAAGCCTCAAGTGATCCAGGAGTACGAGTCAGGAAAGGCCATTCCAAACCAGCAGATAATTGGCAAGTTGGAAAGAGCCCTTGGAGCTA

upper sequence: Vv19s0014g01260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G15420.1 (Glycine max), 3'ss of exon 3
--------------------------------gtatctctccttctttttgtccggctctgttcctagttcgtacttaatctaatatcactttgatcgttgttatattttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCCATTCCAAATCAACAGATAATCACCAAACTGGAAAGGGCTCTTGGTGTGA
                                 ||| |       | || |||    | | ||||||  | ||| |||  |       |   ||  | ||||||    |||||| |||| ||||||||||| |||||||| || ||||| |||||||| || ||||||||||| || ||||||||    ||  |||||||||||||||| |  |
gtattgctttcttctctgtagattttttttgaatatattattcattattggtctcttttttttccta-ctagtatttaggcatgatcaatgatgtgcattgttac---ttgcagCTGATCAATGAGAAGCCTCAAGTGATCCAGGAGTACGAGTCAGGGAAGGCCATTCCAAACCAGCAGATAATTGGGAAGTTGGAAAGGGCTCTTGGAGCAA

upper sequence: Vv19s0014g01260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G58680.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatctctccttctttttgtccggctctgttcctagt-tcgtacttaatctaatatcactttgatcgtt---gttat-attttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCCATTCCAAATCAACAGATAATCACCAAACTGGAAAGGGCTCTTGGTGTGA
|||  |    || | | |||     ||| || ||  |   ||  ||  ||    ||    || || ||    ||| | ||| || || |||| ||||||||||| |||||||| ||||| || ||||| || ||||| ||||| |||||||||||  |  | || ||||| ||||| |||||||  |
gtactttcatttttctctgtatctttctctttcttttactgtctttcgtcagtaattgaattcattgtatgggttttgattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCAATTCCGAATCAACAGATCCTTTCAAAGCTGGAGAGGGCACTTGGTGCTA

upper sequence: Vv19s0014g01260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G42680.1 (Arabidopsis thaliana), 3'ss of exon 3
-----gtatctctccttctttttgtccggctctgtt--cctagttcgtacttaatctaatatcactttgatcgttgttatattttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCCATTCCAAATCAACAGATAATCACCAAACTGGAAAGGGCTCTTGGTGTGA
      ||||  ||  ||| | |||||     | ||  |||| || |||  |    | ||  ||   || | |||  | | || || |||| || ||||||||||| |||||||| |||||||||||||| || ||||| || || || || || ||  |  | || ||||| || || ||||| |  |
gtatattatccttctctctatatgtcccttattattaccctattttgtaactcggttcatgacaaagtgtttgtttcttt-ttgtgtagATCATCAATGAGAAGCCACAAGTGATTCAAGAGTATGAGTCTGGCAAAGCTATACCCAACCAGCAAATCCTTTCTAAGCTGGAGAGAGCGCTTGGAGCTA

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|110408941|gb|EC974590.1|EC974590
EST:     TCATGCAAGCTCGACTGGATAAGAAACTCACCCAGGCTCAACTAGCTCAA                         ATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCC
genomic: TCATGCAAGCTCGACTGGATAAGAAACTCACCCAGGCTCAACTAGCTCAAgtatctctcc ... tattttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCC
EST: gi|161711515|gb|FC058717.1|FC058717
EST:     TCATGCAAGCTCGACTGGATAAGAAACTCACCCAGGCTCAACTAGCTCAA                         ATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCC
genomic: TCATGCAAGCTCGACTGGATAAGAAACTCACCCAGGCTCAACTAGCTCAAgtatctctcc ... tattttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCC
EST: gi|110408619|gb|EC974256.1|EC974256
EST:     TCATGCAAGCTCGACTGGATAAGAAACTCACCCAGGCTCAACTAGCTCAA                         ATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCC
genomic: TCATGCAAGCTCGACTGGATAAGAAACTCACCCAGGCTCAACTAGCTCAAgtatctctcc ... tattttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttcctagttcgtacttaatctaatatcactttgatcgttgttatattttgcagATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCCATTCCAAATCAACAGATAATCACCAAACTGGAAAGGGCTCTTGGTGTGA
             tacttaatctaatat  TA-rich tract