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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattattattattttcatttttttgttatttttttctgaactcccaaaatttggatttttatttaagggggatttggtgatttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATCGGAAATATCCGAACGGTTCAAGGCCGAACCGGGCAGCGGGAACAGGGTA

Basic information

species Vitis vinifera
transcript Vv18s0001g02300.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g02300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g66120.1 (Oryza sativa), 3'ss of exon 1
-----gtaattattattatt--ttcatttttttgttatttttttctgaactcccaaaatttggatttttatttaagggggatttggtgat-ttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATCGGAAATATCCGAACGGTTCAAGGCCGAACCGGGCAGCGGGAACAGGGTA
      ||||  |  |  |   | |      |  | |      ||    |   |   | |||  |  ||  ||  |   |||||| || | |||   || ||||||  ||||||||||||| |||||||||||||| || ||| |||| || || || |||||||| ||  |||||||||| || || ||  | |||||
gtacgataatcctcctcctccatcctcccaatcatcaccaccatcaacgccgtcgtgaattgattgattgatttggtttgatttgttggtgttgtgtagGGATGGCGCTGTACGGAGAGAAGGAGTGGTACTTCTTCTCCCCGCGAGACCGCAAGTACCCGAACGGGTCGCGGCCGAACCGCGCCGCCGGGTCGGGGTA

upper sequence: Vv18s0001g02300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G42800.1 (Glycine max), 3'ss of exon 1
gtaattattattattttcatttttttgt-tattttt-ttctgaactcccaaaatttggatttttatttaagggggatttggtgatttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATCGGAAATATCCGAACGGTTCAAGGCCGAACCGGGCAGCGGGAACAGGGTA
     ||  ||||| ||||  || |  | |||| || |||| || ||  ||    |  ||||||          || ||| |   ||| ||||   |||| |  ||||||||||||||||||||||||||||| ||  | || |||||||| ||||||||||| |||||||||||||| |||||||| || ||
----gtaacattatcttcaacttctgatatattcttattcttaattcttaattcattcatttttt---------gaattgtta--ttgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACCGGAAATACCCGAACGGTTCCAGGCCGAACCGGGCGGCGGGAACCGGTTA

upper sequence: Vv18s0001g02300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G11970.1 (Glycine max), 3'ss of exon 1
gtaattattattattttcatttttttgttatttttttctgaactcccaaaatttggatttttatttaagggggatt-tggtgat-ttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATCGGAAATATCCGAACGGTTCAAGGCCGAACCGGGCAGCGGGAACAGGGTA
        ||  ||  |||||  ||  ||  ||  ||||    |  |  | | |  |||||||||||       ||   ||| |  |  ||||   ||||    || |||||||||||||||||||||||||| ||  | || |||||||| || |||||||| |||||||||||||| || || || || ||
-------gtaacataatcattcattcattcattcattcttcgatttctgattcttaatttttatttattaattgttactgtgttactttacagGATTGGCTACTTATGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACCGGAAATACCCAAACGGTTCGAGGCCGAACCGGGCGGCTGGCACCGGTTA

upper sequence: Vv18s0001g02300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G24220.1 (Glycine max), 3'ss of exon 1
------------------------------------------------gtaattattattattttcatttttttgttatttttt--------tctgaactcccaaaatttgga-----tttttatttaagggggattt-----------ggtgat---ttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATCGGAAATATCCGAACGGTTCAAGGCCGAACCGGGCAGCGGGAACAGGGTA
                                                |  | | || ||  |||   || | || ||    |           |  | | |  |||| |  |     |||||||| |      ||||           ||||     ||   |||  ||||| ||||||||||||||||||||||| || ||  ||||||| || || || || |||||||||||  ||||||||||| | |||||||| |||||
gtaacagtaatacacaaatcgaatccattatctttttttctctcctctgcgactttttttcgttttccttctctgctaaccatcagatccaccttataattctgaaatatataatatttttttattaataaataattttattttcttttggtgtcgtgttatgcagGAATGGCTTTGTACGGAGAGAAAGAGTGGTATTTTTTCACGCCGAGGGACCGCAAGTACCCGAACGGTTCGCGGCCGAACCGGTCCGCGGGAACCGGGTA

upper sequence: Vv18s0001g02300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G26480.1 (Glycine max), 3'ss of exon 1
------gtaattattattattttcatttttttgttatttttttctgaactcccaaaatttggatttttatttaagggggatttggtgat---ttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATCGGAAATATCCGAACGGTTCAAGGCCGAACCGGGCAGCGGGAACAGGGTA
       |       |||||| ||||  || ||  ||   |      |         | | |||   || || |      | ||||| |   ||    ||  ||||| ||||||||||||||||||||||| || ||  ||||||| || || || || |||||||||||  ||||||||||| | ||||| || || ||
taaaatcttgcacaaattattctcataattctgaaataaatgataataacttttttttattgataaataatttaatatattctggtgttgtgttatgtagGAATGGCTTTGTACGGAGAGAAAGAGTGGTATTTTTTCACGCCGAGGGACCGCAAGTACCCGAACGGTTCGCGGCCGAACCGGTCCGCGGGGACCGGATA

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|32247810|gb|CD713629.1|CD713629
EST:     GCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTG                         AGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
genomic: GCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTGgtaattatta ... atttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
EST: gi|32247866|gb|CD713685.1|CD713685
EST:     GCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTG                         AGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
genomic: GCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTGgtaattatta ... atttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
EST: gi|110390288|gb|EC955190.1|EC955190
EST:     GATCATTGCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTG                         AGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
genomic: GATCATTGCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTGgtaattatta ... atttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
EST: gi|32248569|gb|CD714388.1|CD714388
EST:     GCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTG                         AGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
genomic: GCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTGgtaattatta ... atttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
EST: gi|71858247|gb|DT007302.1|DT007302
EST:     GATCATTGCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTG                         AGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
genomic: GATCATTGCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTGgtaattatta ... atttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
EST: gi|110371825|gb|EC935949.1|EC935949
EST:     GATCATTGCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTG                         AGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
genomic: GATCATTGCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTGgtaattatta ... atttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
EST: gi|161717713|gb|FC065938.1|FC065938
EST:     GATCATTGCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTG                         AGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC
genomic: GATCATTGCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTGgtaattatta ... atttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgaactcccaaaatttggatttttatttaagggggatttggtgatttgaacagAGATGGCCTTGTACGGAGAGAAAGAGTGGTACTTCTTTTCGCCGAGAGATCGGAAATATCCGAACGGTTCAAGGCCGAACCGGGCAGCGGGAACAGGGTA
           aaaatttggattttta  TA-rich tract