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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagattgtggatatttgggccatattttatagtagttatttttgttaaggtcaggtgtgaaatgttcgtagaccaaaccattttatcatgttgaatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCCGATCACCTTTCTAATGATGCAAAAAGTTTTGTAAGGCTATGCTTGCAAC

Basic information

species Vitis vinifera
transcript Vv04s0044g01290.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os11g10100.2 (Oryza sativa), 3'ss of exon 8
gtgagattgtggatatttgggccatattttatagtagttatttttgttaaggtcaggtgtgaaatgttcgt--agaccaaaccat-tttatcatgttgaatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCCGATCACCTTTCTAATGATGCAAAAAGTTTTGTAAGGCTATGCTTGCAAC
                        ||    |  ||  | | |||| | | |||   |||   ||  | | |    ||||  | |   || |  |     || | ||||||||||||||| ||||||||||| |||||||  ||  | || || ||||| ||||| ||||||  ||| ||||| |  ||| | |  || |||||||| |
-----------------------gtaagcaagtgttatgaatttt-tcatggtatagtgcccaacttccattggaaccatgctaagctttttgtaactgat-tcacagGTGGCTGCAATATTTAAAATTGGCAACAGCAAAGACATACCCGATATTCCAGATCATCTTTCTTTTGAGGCAAAGAACTTTTTGAAACTTTGCTTGCAGC

upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G15870.1 (Glycine max), 3'ss of exon 9
gtgagattgtggatatttgggccatattttatagtagttatttttgttaaggtcaggtgtgaaatgttcgtag-accaa-accattttatca-tgt-tgaatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCCGATCACCTTTCTAATGATGCAAAAAGTTTTGTAAGGCTATGCTTGCAAC
||  |||| ||||||||| |  | ||   | || | |  || |||| || |  |   | ||||  ||  | || ||||| |   |||| ||| ||  || ||    ||||| |||||||| ||||||||||| |||||||| ||| | ||||||||||| |||||||| || | ||| ||||| | |||  |   ||||||||| ||| 
gtatgattttggatatttagaac-tagcatgtatttgc-atatttgctaggagcctatttgaagagtatgaaggaccaacattgttttttcaatgcctgtattcaccagGTAGCTGCAATATTTAAAATTGGTAACAGCAGAGATATGCCTGAAATTCCGGATCACCTCTCAAGTGAGGCAAAGAATTTCATTCAGCTATGCTTACAAA

upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G16670.1 (Glycine max), 3'ss of exon 8
gtgagattgtggatatttgggccatattttatagtagt-tatttttgttaaggtcaggtgtgaaatgttcgtagaccaaaccattttatcatgttgaatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCCGATCACCTTTCTAATGATGCAAAAAGTTTTGTAAGGCTATGCTTGCAAC
|||||||  |||||| ||  |   ||  || || | || ||    ||||         ||   ||| |   |   | |||   ||||   |||||| |    |||||| ||||| || ||||||||||| |||||||  ||| | |||||||| ||||| || ||||| |||||||||||||  ||  | | ||||||||| ||| 
gtgagatattggatacttcagaactagcttttacttgtataaccctgtt---------tggtgaatatgaatgaccaaaattgtttt--tatgttggactgaacagGTAGCTGCCATATTTAAAATTGGGAACAGCAAAGATATGCCTGAAATCCCCGAGCATCTTTCGAATGATGCAAAAAAATTCATCAAGCTATGCTTACAAA

upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G39110.1 (Glycine max), 3'ss of exon 8
gtgagattgtggatatttgggccatattttatagtagttatttttgttaaggtcaggtgtgaaatgttcgta-gaccaa-accattttatca-tgt-tgaatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCCGATCACCTTTCTAATGATGCAAAAAGTTTTGTAAGGCTATGCTTGCAAC
||  |||| ||||||||| |  | ||   | || | |  || |||| || |  |   | | ||  ||  | | | |||| |   |||| | | ||  || ||   |||||| |||||||| ||||||||||| |||||||| ||| | ||||||||||| ||||| || || |  || ||||| |  ||  |   ||||||||| ||| 
gtatgattttggatatttagaac-tagcatgtatttgc-atatttgctatgagcctattttaagagtatgaaaggccaacattgtttttttaatgcctgtattcaacagGTAGCTGCAATATTTAAAATTGGTAACAGCAGAGATATGCCTGAAATTCCTGATCATCTCTCAAGCGAGGCAAAGAAATTCATTCAGCTATGCTTACAAA

upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G32510.1 (Glycine max), 3'ss of exon 8
gtgagattgtggatatttgggccatattttatagtagt-tatttttgttaaggtcaggtgtgaaatgttcgtagaccaaaccattttatcatgttgaatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCCGATCACCTTTCTAATGATGCAAAAAGTTTTGTAAGGCTATGCTTGCAAC
|||||||  |||||| ||  |   ||  || || | |  ||    ||||         ||   ||| |   |     |||   ||||   |||||| ||   |||||| ||||| || ||||||||||| |||||||  ||| | |||||||| ||||| || ||||| || |||||||||| |||  | | ||||||||| ||| 
gtgagatattggatacttcagaactagcttttacttgcataaccctgtt---------tggtgaatatgaatgactaaaattgtttt--tatgttggattgaacagGTAGCTGCCATATTTAAAATTGGGAACAGCAAAGATATGCCTGAAATCCCCGAGCATCTTTCGAACGATGCAAAAAATTTCATCAAGCTATGCTTACAAA

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|110698751|gb|EE076609.1|EE076609
EST:     CAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAATATGAAGGG                         GTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCC
genomic: CAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAATATGAAGGGgtgagattgt ... aatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCC
EST: gi|26257410|gb|CA808473.1|CA808473
EST:     AATCTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAATATGAAGGG                         GTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCC
genomic: AAT-TCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAATATGAAGGGgtgagattgt ... aatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCC
EST: gi|26257306|gb|CA808369.1|CA808369
EST:     CAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAATATGAAGGG                         GTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCC
genomic: CAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAATATGAAGGGgtgagattgt ... aatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCC
EST: gi|161719911|gb|FC068682.1|FC068682
EST:     CAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAATATGAAGGG                         GTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCC
genomic: CAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAATATGAAGGGgtgagattgt ... aatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCC
EST: gi|27583422|gb|CB006117.1|CB006117
EST:     CAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAATATGAAGGG                         GTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCC
genomic: CAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAATATGAAGGGgtgagattgt ... aatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtcaggtgtgaaatgttcgtagaccaaaccattttatcatgttgaatgtgacagGTGGCTGCAATTTTTAAAATTGGAAACAGCAGGGATGTCCCTGAAATTCCCGATCACCTTTCTAATGATGCAAAAAGTTTTGTAAGGCTATGCTTGCAAC
                               attttatcat  TA-rich tract