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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatgccaattctcttctgtatttgcagcagctgagattcatcccttgcgattaatatttgaatcatttttgtagGCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCCCTAAAGGCTACTCTTTCTGGACTCCCAGACCGGGTTTTCATGAAACTTA

Basic information

species Vitis vinifera
transcript Vv07s0141g00390.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0141g00390.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os10g28000.1 (Oryza sativa), 3'ss of exon 6
gtgatgccaattctcttctgtatttgcagcagctgagattcatcccttgcgatt--aatatttgaatcatttttgtagGCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCCCTAAAGGCTACTCTTTCTGGACTCCCAGACCGGGTTTTCATGAAACTTA
||  ||  || |  |     | ||  |    ||  | |  ||   |  |  |||  | ||    |  || || ||||||| ||  |||| ||||||||  |||||||||||||| |||||||||| || || | ||| ||||||||||| || || || || || | ||||||  |||
gtattgtaaacttacaaacttgttaac--ttgcaaaaacaca---cgagaaatttaagtaaactatacacttctgtagGCGATCGAAAAGTATGGAGATGTTGATGTCTACACATCAAACTTCAGACCTCTCAGGGCCACTCTTTCTGGTCTACCTGATCGTGTATACATGAAGGTTA

upper sequence: Vv07s0141g00390.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g06740.1 (Oryza sativa), 3'ss of exon 7
gtgatgccaattctcttctgtatttgcagcagctgagattcatcccttg--cgattaatatttgaatcatttttgtagGCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCCCTAAAGGCTACTCTTTCTGGACTCCCAGACCGGGTTTTCATGAAACTTA
    |      |       | || |  |  |  |||    ||         | ||||| ||||| ||  ||| || |||||||  |  | ||||||||  ||||| |||| ||||||||||||||||| || | ||| ||||| |||||| | || || ||  ||||||||||||| |
---gtatagcatacgacgcgcatctatataaagtgatgcacaaaagaaagtcaattaa-atttgtat--tttgtgcagGCTATTGAGGAGTATGGAGATGTTGATATCTATACAGCAAACTTCAGGCCACTTAGGGCAACTCTCTCTGGATTACCTGATCGCATTTTCATGAAACTCA

upper sequence: Vv07s0141g00390.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G16010.1 (Glycine max), 3'ss of exon 7
-----------------------------gtgatgccaattc-tcttctg--tatttgcagcagctg---agattcatcccttgcgattaatatttgaatcatttttgtagGCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCCCTAAAGGCTACTCTTTCTGGACTCCCAGACCGGGTTTTCATGAAACTTA
                              || |  ||| |  |||||||  |||||  |  |  ||   ||||| ||   ||||   ||| ||||   | ||||    ||||| ||||| |||||||||| |||||  ||| ||| ||||| || ||||| || || |||||||| ||||| || |||||||||||||| |||||| |  
gtgagagaattatgcagtgtccggctctaatgctttcaaatggtcttctgaatattttaatgaattgtacagattaatgttttgc---taacattttggtgatttgcacagGCTGTACAACAATATGGAGATATTGACATCTTCACTGCAAATTTTAGGCCGCTGAAAGCTACTCTCTCTGGGCTTCCAGACCGGGTTTTTATGAAATTAG

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|37185016|gb|CF604369.1|CF604369
EST:     CTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAG                         GCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCC
genomic: CTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAGgtgatgccaa ... atttttgtagGCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCC
EST: gi|110723818|gb|EE099103.1|EE099103
EST:     TGTGTTTTCCCACCC-CCTATTTGAACA-GTTGGTCCTACTGAAGAACAG                         GCTATACAAAA
genomic: TGTGTTTTCCCAGCCACCTATTGGA-CAAGTTGGTCTTACTGAAGAACAGgtgatgccaa ... atttttgtagGCTATACAAAA
EST: gi|110380596|gb|EC945872.1|EC945872
EST:     CTGTG-TTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAG                         GCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCC
genomic: CTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAGgtgatgccaa ... atttttgtagGCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCC
EST: gi|352764472|gb|FQ472829.1|FQ472829
EST:     CTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAG                         GCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCC
genomic: CTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAGgtgatgccaa ... atttttgtagGCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCC
EST: gi|30300982|gb|CB977776.1|CB977776
EST:     CTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAG                         GCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCC
genomic: CTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAGgtgatgccaa ... atttttgtagGCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCC
EST: gi|30300914|gb|CB977708.1|CB977708
EST:     CTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAG                         GCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCC
genomic: CTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAGgtgatgccaa ... atttttgtagGCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgcagcagctgagattcatcccttgcgattaatatttgaatcatttttgtagGCTATACAAAAATATGGAGACATTGATGTCTACACAGCAAACTTCAGGCCCCTAAAGGCTACTCTTTCTGGACTCCCAGACCGGGTTTTCATGAAACTTA
                             gattaat  putative branch site (score: 3)
                                           tcattttt  putative PPT
                              attaatatttgaatca  TA-rich tract