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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatttcttgttcccatatgtagtgtttcaaataaattctatctaatcttagaaaataaggaatttgattgactgcttcacttcatgcagGTATGCGTCCCATAGAGTTCATGTAACCTGTGCTTTGGTCTATGGTCCAAGTCCCACAGGCAGAATTCACAAAGGGGTGTGTTCAACCTGGATGAAG

Basic information

species Vitis vinifera
transcript Vv18s0001g07630.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G10200.1 (Glycine max), 3'ss of exon 12
gtgaatttcttgttcccatatgtagtgtttcaaataaattctatctaatcttagaaaataaggaatttgattg-actgcttcacttcatgcagGTATGCGTCCCATAGAGTTCATGTAACCTGTGCTTTGGTCTATGGTCCAAGTCCCACAGGCAGAATTCACAAAGGGGTGTGTTCAACCTGGATGAAG
|||  | |||| | |  || |  ||| |  ||||| || | | | |||  | |   |  ||| |||   || | | | ||| | |   |  |||| |||  | || || || ||||| || ||||| ||||| |||||||||| |||||| || |||||||||||||| || ||||||||||||||||||
gtggttatcttat-cttatttaaagtatc-caaatgaagtttttataagataatggacgaagaaataatatcgcattacttgatt--gtcaagGTTTGCTCCGCAAAGGGTACATGTTACTTGTGCCTTGGTGTATGGTCCAACTCCCACTGGTAGAATTCACAAAGGAGTATGTTCAACCTGGATGAAG

upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA02G37850.1 (Glycine max), 3'ss of exon 12
gtgaatttcttgttcccatatgtagtgtttcaaataaattctatctaatcttagaaaataaggaatttgattgactgcttcacttcatgcagGTATGCGTCCCATAGAGTTCATGTAACCTGTGCTTTGGTCTATGGTCCAAGTCCCACAGGCAGAATTCACAAAGGGGTGTGTTCAACCTGGATGAAG
|||| | |||| | |  || |  | | | | ||  || || ||    |     |   ||||   | |   |||  |  ||    |  |  |||| | | || || || || |||||||| ||||| ||||| | |||||||| ||| ||||| |||||||||||||| || ||||||||||||||||||
gtgattatcttatact-atctaaaatatatgaacaaagttttaagagagaagtggccataaaataat--gttgtttagtttttatattctagGTTTTCCTCGCAAAGGGTACATGTAACTTGTGCCTTGGTATGTGGTCCAACTCCTACAGGAAGAATTCACAAAGGAGTATGTTCAACCTGGATGAAG

upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA06G10180.1 (Glycine max), 3'ss of exon 12
gtgaatttcttgttcccatatgtagtgtttcaaataaa--ttctatctaatcttagaaaataaggaatttgattgactgcttcacttcatgcagGTATGCGTCCCATAGAGTTCATGTAACCTGTGCTTTGGTCTATGGTCCAAGTCCCACAGGCAGAATTCACAAAGGGGTGTGTTCAACCTGGATGAAG
|||  | |||| | |  || |  ||| |  ||||| ||  || |||   ||  | |   | |  ||   |     | | ||| | |   | ||||| |||  | || || || ||||| || ||||| ||||| |||||||||| |||||| || |||||||||||||| || ||||||||||||||||||
gtggttatcttat-cttatttaaagtatc-caaatgaagtttttataagataattggtgaaagagataatatcatattacttgatt--gtccagGTTTGCTCCGCAAAGGGTACATGTTACTTGTGCCTTGGTGTATGGTCCAACTCCCACTGGTAGAATTCACAAAGGAGTATGTTCAACCTGGATGAAG

upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA14G36070.1 (Glycine max), 3'ss of exon 12
gtgaatttcttgttcccatatgtagtgtttcaaataaattctatctaatcttagaaaataaggaatttgattgactgcttcacttcatgcagGTATGCGTCCCATAGAGTTCATGTAACCTGTGCTTTGGTCTATGGTCCAAGTCCCACAGGCAGAATTCACAAAGGGGTGTGTTCAACCTGGATGAAG
|||| | |||| | |  || |  | | | | || ||| || |||   ||   ||     ||  |||    |||  |  ||    |  |  |||| | |  | || |  || |||||||| ||||| ||||| | |||||||| ||| || || |||||||||||||| || ||||||||||||||||||
gtgattatcttatact-atctaaaatatatgaactaagttttat--gattgaagtggccaacaaataacgttgcttagttattatattctagGTTTTCCCCGCAAAAGGTGCATGTAACTTGTGCCTTGGTATGTGGTCCAACTCCTACTGGAAGAATTCACAAAGGAGTATGTTCAACCTGGATGAAG

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|27584661|gb|CB007356.1|CB007356
EST:     CTCGATTGCAGCCTCGTTACTATTCAATCTCATCCTCTCCTAG                         GTATGCGTCCCATAGAGTTCATGTAACCTGTGCTTTGGTCTATGGTCCAAG
genomic: CTCGATTGCAGCCTCGTTACTATTCAATCTCATCCTCTCCTAGgtgaatttct ... cttcatgcagGTATGCGTCCCATAGAGTTCATGTAACCTGTGCTTTGGTCTATGGTCCAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctatctaatcttagaaaataaggaatttgattgactgcttcacttcatgcagGTATGCGTCCCATAGAGTTCATGTAACCTGTGCTTTGGTCTATGGTCCAAGTCCCACAGGCAGAATTCACAAAGGGGTGTGTTCAACCTGGATGAAG
                               gattgac  putative branch site (score: 3)
                                        cttcacttc  putative PPT
        taatcttagaaaataa  TA-rich tract