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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatcctctcatctaaagtgtagtcactggcttatgaaattgaatgctcttgccttagctttgaagagcaaggattaagatttccttttgtttgtaccttatgtggctaattgttaagaattttatattcctgttcttcattaatcctttgcaagttggttactgaaaattccacattgggactggtagGCAATTGAGAAAAGCTGCAGGGTTGGATAATCTCCTTTACACCCCAGACGCAGACTTCTCTTGCTTTGCCGATCTAGCACTTTCATCTCCAGAAGATTAC

Basic information

species Vitis vinifera
transcript Vv14s0030g01740.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA20G37170.1 (Glycine max), 3'ss of exon 10
gtgatcctctcatctaaagtgtagtcactggcttatgaaattgaatgctcttgccttagctttgaagagcaaggattaa--gatttccttttgtttgtaccttatgtggctaattgttaagaattttatattcctgttcttcattaatcctttgcaagttggttactgaaaattccacattgggactggtagGCAATTGAGAAAAGCTGCAGGGTTGGATAATCTCCTTTACACCCCAGACGCAGACTTCTCTTGCTTTGCCGATCTAGCACTTTCATCTCCAGAAGATTAC
                                         | | |         |||| |      || ||  || ||  ||| | |||||| ||  ||  ||   |  | || |           || |||||    || || | |  | | ||| ||  | |     |     ||  |  || ||  |||| | || | |||||||  ||||||||||| || || || || || || ||||| || ||||||||||| || || ||||||||||||||||||||||| 
----------------------------------------gtaagtctctgaattttaggtccatgtagaaactataaagtgatgtacttttgctttgacagtaaa-gattgatcg-----------attttcct----ttgatcattattgttcaacttcttcat--gcacccttactatctgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGCAGATTTTTCTTGCTTTGCAGACCTTGCACTTTCATCTCCAGAAGATTAT

upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G30220.1 (Glycine max), 3'ss of exon 10
gtgatcctctcatctaaagtgtagtcactggcttatgaaattgaatgctcttgccttagctttgaagagcaaggattaagatttccttttgtttgtaccttatgtggctaattgttaagaattttatattcctgttcttcattaatcctttgcaagttggttactgaaaattccacattgggactggtagGCAATTGAGAAAAGCTGCAGGGTTGGATAATCTCCTTTACACCCCAGACGCAGACTTCTCTTGCTTTGCCGATCTAGCACTTTCATCTCCAGAAGATTAC
                                              |   ||  || |  |||   |  || | |   | | |      || | |||| ||   |   | |  ||||||| |  | ||| | |     | || | |  | | ||| ||  | | || |   |    ||  ||| ||  |||| | || | |||||||  ||||||||||| || || || || || || ||||| || ||||||||||| || || ||||||||||||||||| ||||| 
----------------------------------------------gtaattctctgaattttagggtccatgta--gaaactataaagtgat-gtacttttgct--ttgacagttaagattgatctatcctt-----tgatcattattgttcaacttcttca-tgcacccttactatctgga-tgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGCAGATTTTTCTTGCTTTGCAGACCTTGCACTTTCATCTCCAGAGGATTAT
















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|294965914|gb|GW839253.1|GW839253
EST:     CTTAGATGCAATGGCTGGGTCACAGAGTTACAGGATCTAGAACGGTCAAG                         GCAATTGAGAAAAGCTGCAGGGTTGGATAATCTCCTTTACACCCCAGACGC
genomic: CTTAGATACAATGGCTGGGTCACAGAGTTACAGGATCTAGAACGGTCAAGgtgatcctct ... ggactggtagGCAATTGAGAAAAGCTGCAGGGTTGGATAATCTCCTTTACACCCCAGACGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcattaatcctttgcaagttggttactgaaaattccacattgggactggtagGCAATTGAGAAAAGCTGCAGGGTTGGATAATCTCCTTTACACCCCAGACGCAGACTTCTCTTGCTTTGCCGATCTAGCACTTTCATCTCCAGAAGATTAC
    cattaat  putative branch site (score: 3)
                             tgaaaatt  TA-rich tract