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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgcctcttatcttgcaatcatgtgtcacatttatcttgcaatcatgtcacatttatcttgctgtcctatcattcttccattacgatcttcagttttagttacagtttccttgatggatgacttctggtcctgcatgcagGCAAGGCAACTTGTGTAAAATTTGGTCCAGATGCAAAATACTTGGCAGTAGGATCAATGGATCGGAACCTCCGCATATTTGGCCTCCCAGGGGATGATGG

Basic information

species Vitis vinifera
transcript Vv05s0049g01840.t01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA10G26870.1 (Glycine max), 3'ss of exon 17
gttttgcctcttatcttgcaatcatgtgtcacatttatcttgcaatcatgtcacatttatcttgctgt--cctatcattcttccattacgatcttcagttttagttacagtttccttgatggatgacttctggtcctgcatgcagGCAAGGCAACTTGTGTAAAATTTGGTCCAGATGCAAAATACTTGGCAGTAGGATCAATGGATCGGAACCTCCGCATATTTGGCCTCCCAGGGGATGATGG
                                                 || | | || | || | ||    ||| |||| | ||     |  |    | ||  ||      |   | ||  |  ||||       ||    |||| |||   || ||||||||||||||| ||||| | |||||| | ||||| ||||||||||| ||||| || || ||||| ||| | || || || |||| 
-------------------------------------------------gttatactttttttcccgttgtttattattccttcagagttagatggtttcttgtttgtccagttaataatacacaacttgaacctttgttatcagGGAAGAACACGTGTGTAAAATTTGGTTCAGATTCTAAATACATAGCAGTGGGATCAATGGACCGGAATCTTCGGATATTCGGCTTGCCTGGCGAAGATGC

upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA20G21330.1 (Glycine max), 3'ss of exon 17
gttttgcctcttatcttgcaatcatgtgtcacatttatcttgcaatcatgtcacatttatcttgctgtcctatcattcttccattacgatcttcagttttagttacagtttccttgatggatgacttctggtcctgcatgcagGCAAGGCAACTTGTGTAAAATTTGGTCCAGATGCAAAATACTTGGCAGTAGGATCAATGGATCGGAACCTCCGCATATTTGGCCTCCCAGGGGATGATGG
                                     | ||  |    | || ||||  || |  |  | |     | |     |   || ||    || ||||||   | |     | ||  |||| |  | ||     |||| |||   || ||||||||||||||||||||| | |||||| | || || ||||||||||| || || || || ||||| ||| | || || || |||| 
------------------------------------gttttatacctttttcccattgttcattattccttgagggtttgatgatttcatgtttg--ttcagttactaatacacaactcga--actttttcttct-----cagGGAAGAACACGTGTGTAAAATTTGGTCCAGATTCTAAATACATAGCTGTGGGATCAATGGACCGAAATCTTCGGATATTCGGCTTGCCCGGTGAAGATGC
















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|110422448|gb|EC988773.1|EC988773
EST:     AAAATCGGAGTGGAACTGTATCAAAACATTCCCTGATTTGTCTGGCACAG                         GCAAAGCAACTTGTGTAAAATTTGGTCCAGATGCAAAATACTTGGCAGTAG
genomic: AAAATCGGAGTGGAACTGTATCAAAACATTCCCTGATTTGTCTGGCACAGgttttgcctc ... ctgcatgcagGCAAGGCAACTTGTGTAAAATTTGGTCCAGATGCAAAATACTTGGCAGTAG
EST: gi|77580118|gb|DV218951.1|DV218951
EST:     AAAATCGGAGTGGAACTGTATCAAAACATTCCCTGATTTGTCTGGCACAG                         GCAAGGCAACTTGTGTAAAATTTGGTCCAGATGCAAAATACTTGGCAGTAG
genomic: AAAATCGGAGTGGAACTGTATCAAAACATTCCCTGATTTGTCTGGCACAGgttttgcctc ... ctgcatgcagGCAAGGCAACTTGTGTAAAATTTGGTCCAGATGCAAAATACTTGGCAGTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttcagttttagttacagtttccttgatggatgacttctggtcctgcatgcagGCAAGGCAACTTGTGTAAAATTTGGTCCAGATGCAAAATACTTGGCAGTAGGATCAATGGATCGGAACCTCCGCATATTTGGCCTCCCAGGGGATGATGG
                       ccttgat  putative branch site (score: 5)
        ttttagtta  TA-rich tract