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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttgaaatttacagtgatgttggctgatctcatcccatttttcgtatcttatttgtatttctaacagccatggttttggtcttctatcatacagGGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCACTTTCAGTAGTTGTCTTCGT

Basic information

species Vitis vinifera
transcript Vv19s0090g00930.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G10400.1 (Glycine max), 3'ss of exon 7
-----------------------------gttggttgaaatttacagtgatgttggctgatctcatcccatttttcgtatcttatttgtatttctaacagccatgg--ttttggtcttctatcatacagGGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCACTTTCAGTAGTTGTCTTCGT
                             ||| |||     || ||   |   || ||  |  ||| | ||      | | ||||   | ||   |||    || |  ||| |||||  | | | ||||||||||||||||||||||||  || || || |||||||||| ||| || |||||||| | ||| ||||||
gttggttactaatttacaactccatgcatgtttgttccttcttccacctaaactgcctcttgccatac-ataccctttttgttatcaattttcaaaactctaattgaatttcggtctggt-taaaacagGGCTTGTGATGCATTAAGAAGCTGTCTGCCAGACATGTTAAGAGATGCTACTTTCAGCACTTGCCTTCGT

upper sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G46250.1 (Glycine max), 3'ss of exon 7
gttggttgaaatttacagtgatgttggctgatctcatcccatttttcgtatcttatttgtatttctaacagccatggtt---ttggtcttctatcatacagGGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCACTTTCAGTAGTTGTCTTCGT
||| ||| || |  | ||| |     | |       | |   |   | |  | | |  ||  |||  |      |  |     ||||| | |   | |||| |||||||| |||||||||   || |||||||||||||||| ||| || || ||||||||||| ||||||
gtttgtt-aagtagatagtaactccagttttgtaagtgctcctgcccatgccctttacgttcttcccaagtttctaataaaactggtcattt-caaaacagTGCTTGTGAGGCATTAAGAGCCTGTCTTCCGGACATGTTAAGAGATGCTACGTTCAGTAGTTGCCTTCGT

upper sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G43220.1 (Glycine max), 3'ss of exon 7
---------------------------------gttggttgaaatttacagtgatgttggctga-tctcatcccatttttcgtatcttatttgtatttctaacagcca---tggttttggtcttctatcatacagGGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCACTTTCAGTAGTTGTCTTCGT
                                  ||  ||    ||  |    |  |   |||  |||  ||  |  |  | | | |  | |  ||||  || |  |    ||   ||     |   | | ||||||||||||||||||||||||  || || || |||||||||| ||| || |||||||| | ||| ||||||
gttggttactaatttacaactccatgcatgtgtattccttcttcttcccttccacctaaactgcctcttgtcatacataccctttttgttatcaattttcaaaactctaattgaacttcaatctggttaaaacagGGCTTGTGATGCATTAAGAAGCTGTCTACCAGACATGTTAAGAGATGCTACTTTCAGCACTTGCCTTCGT

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|110384705|gb|EC949163.1|EC949163
EST:     CTTCTTAAGCATATTATTCGATGTTATCTTCGATTATCAGACAACCCAAG                         GGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCAC
genomic: CTTCTTAAGCATATTATTCGATGTTATCTTCGATTATCAGACAACCCAAGgttggttgaa ... tatcatacagGGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCAC
EST: gi|33405642|gb|CF211269.1|CF211269
EST:     CTTCTTAAGCATATTATTCGATGTTATCTTCGATTATCAGACAACCCAAG                         GGCTTGTGATGCATTAAGAAATTCCCTTCCGGACATGTTAAAAGACGCCAC
genomic: CTTCTTAAGCATATTATTCGATGTTATCTTCGATTATCAGACAACCCAAGgttggttgaa ... tatcatacagGGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCAC
EST: gi|110391951|gb|EC957020.1|EC957020
EST:     CTTCTTAAGCATATTATTCGATGTTATCTTCGATTATCAGACAACCCAAG                         GGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCAC
genomic: CTTCTTAAGCATATTATTCGATGTTATCTTCGATTATCAGACAACCCAAGgttggttgaa ... tatcatacagGGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCAC
EST: gi|110730135|gb|EE106867.1|EE106867
EST:     CTTCTTAAGCATATTATTCGATGTTATCTTCGATTATCAGACAACCCAAG                         GGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCAC
genomic: CTTCTTAAGCATATTATTCGATGTTATCTTCGATTATCAGACAACCCAAGgttggttgaa ... tatcatacagGGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcgtatcttatttgtatttctaacagccatggttttggtcttctatcatacagGGCTTGTGATGCATTAAGAAATTGCCTTCCGGACATGTTAAAAGACGCCACTTTCAGTAGTTGTCTTCGT
                   ttctaac  putative branch site (score: 1)
                                        tcttctatc  putative PPT
     tatcttatttgtattt  TA-rich tract