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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccaatgtctcctccacaatgacatgtaatgtgatgcaacaaatcatttgttgtaccttgtattccctaatataattagattttttggtttatttgtgtttgagcagGTTTTTAGATCCCTTGTCAGGTGTACTAAAGAAATCAAAGGAGCAGAAGTAGAAAATAATAAGTTCTGTGTCTCTGTACATTACCGCAATGTGGATGAGA

Basic information

species Vitis vinifera
transcript Vv16s0022g00660.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G51460.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatgccaatgtctcctccacaatgacatgtaatgtgatgcaacaaatcatttgttgtaccttgtattccctaatataatta--gattttttggtttatttgtgtttgagcagGTTTTTAGATCCCTTGTCAGGTGTACTAAAGAAATCAAAGGAGCAGAAGTAGAAAATAATAAGTTCTGTGTCTCTGTACATTACCGCAATGTGGATGAGA
                                 | |  || |||| ||| | || | ||  |   |    |   ||| |||   ||  | ||| | |  |  | |     |||||  || | || ||| |   | |||| ||||| |||||||| | | |||||||| | || ||||||||  ||||||| |||||||||||||| || || |
--------------------------------gtattttgaaacacatcttctgctatatataacaacatcatgtatgattgttgaactcttgatatgatcttct-----cagGTGCTTTGTTCTCTTATAGAGAGTACAAAAGATATCAAAGGGGTAAAAGTAGAAGACAACAAGTTCTGCATCTCTGTGCATTACCGCAATGTAGAAGAAA
















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|30254979|gb|CB971426.1|CB971426
EST:     AAGTTAATTTGTTCCAGCCTGCGAGTGAATTTTTACCCATGATCGATGAG                         GTTTTTAGATCCCTTGTCAGGTGTACTAAAGAAATCAAAGGAGCAGAAGTA
genomic: AAGTTAATTTGTTCCAGCCTGCGAGTGAATTTTTACCCATGATCGATGAGgtatgccaat ... gtttgagcagGTTTTTAGATCCCTTGTCAGGTGTACTAAAGAAATCAAAGGAGCAGAAGTA
EST: gi|110365313|gb|EC928101.1|EC928101
EST:     AAGTTAATTTGTTCCAGCCTGCGAGTGAATTTTTACCCATGATCGATGAG                         GTTTTTAGATCCCTTGTCAGGTGTACTAAAGAAAATCAAAGGAGCAGAAGT
genomic: AAGTTAATTTGTTCCAGCCTGCGAGTGAATTTTTACCCATGATCGATGAGgtatgccaat ... gtttgagcagGTTTTTAGATCCCTTGTCAGGTGTACTAAAGAAA-TCAAAGGAGCAGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaccttgtattccctaatataattagattttttggtttatttgtgtttgagcagGTTTTTAGATCCCTTGTCAGGTGTACTAAAGAAATCAAAGGAGCAGAAGTAGAAAATAATAAGTTCTGTGTCTCTGTACATTACCGCAATGTGGATGAGA
            ccctaat  putative branch site (score: 3)
               taatataattagattt  TA-rich tract