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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggctggattggctcagatcattgtcatatgaccttgatttgtgaaattctctgttattttagtttttaaatatcttcacttgttctattgtatctgctttcttcaccatgtgcaggtgttgaactacaaataaccataatatctgttgttgttgtttttttttttttttttttgcagGAGGAGCATAGGGCTCGAGATCTATTTTATGCTCTTTGGGTACCTGATCTCTTTATGGAAAGAGTTCAGAGTAATGGGCATTGGTCCCTGTTTTGCCCTA

Basic information

species Vitis vinifera
transcript Vv07s0031g01990.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G340527_T01 (Zea mays), 3'ss of exon 6
gtatggctggattggctcagatcattgtcatatgaccttgatttgtgaaattctctgttattttagtttttaaatatcttcacttgttctattgtatctgcttt--cttcaccatgtgcaggtgttgaactacaaataaccataatatctgttgttgttgtttttttttttttttttttgcagGAGGAGCATAGGGCTCGAGATCTATTTTATGCTCTTTGGGTACCTGATCTCTTTATGGAAAGAGTTCAGAGTAATGGGCATTGGTCCCTGTTTTGCCCTA
                                                                                  | ||   |  ||| |||       | ||  | ||  ||  |  |||      |  | | | |||       |   |  | || |      | ||||  ||||||||  || | ||  | ||||| || ||||| || ||||| |||||||| || ||| ||||||| |||||||||||  | |||||  ||||||||||||
---------------------------------------------------------------------------------gcctgccat-ctgtgtctaacacagcatcgtc-tgctcaacttatgagtggttagcatcgaaaattctcaaagacctgctattctgaacaatattttaacagGAGGAAAATCGTGCAAGGGATCTTTTCTATGCGCTATGGGTTCCTGATCTATTCATGCAAAGAGTCCAGAGTAATGGAGAATGGTCATTGTTTTGCCCTA

upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 6
gtatggctggattggctcagatcattgtcatatgaccttgatttgtgaaattctctgttattttagtttttaaatatcttcacttgttctattgtatctgctttcttcaccatgtgcaggtgttgaactacaaataaccataatatctgttgttgttgtttttttttttttttttttgcagGAGGAGCATAGGGCTCGAGATCTATTTTATGCTCTTTGGGTACCTGATCTCTTTATGGAAAGAGTTCAGAGTAATGGGCATTGGTCCCTGTTTTGCCCTA
                                            ||   |||    | | ||| |     ||   || ||   |     |||| ||  |     | |     |  |    || |     |  ||||    || |   | ||| | | |     | || || ||| | |||||| |||||| | ||||||||| | |||||||||||||||||  |||||||||||||||||||||||||||| |||||||| |||||  |||||||||| |
--------------------------------------------gtatgattgatgggtctttaaaaaagtagcaattttggttcccattatt-tagttttgaccctagtttttagttcatgctagttaaagaatagttctatt--ttattgatatagccacatgttgttatttat-gcagGAAGAGCATCGAGCTCGAGATTTGTTTTATGCTCTTTGGGTGTCTGATCTCTTTATGGAAAGAGTTCAGAGCAATGGGCAATGGTCTTTGTTTTGCCCCA

upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G39500.1 (Glycine max), 3'ss of exon 6
gtatggctggattggctcagatcattgtcatatgaccttgatttgtgaaattctctgttattttagtttttaaatatcttcacttgttc-tattgtatctgctttcttcaccatgtgcaggtgttgaactacaaataaccataatatctgttgttgttgtttttttttttttttttttgcagGAGGAGCATAGGGCTCGAGATCTATTTTATGCTCTTTGGGTACCTGATCTCTTTATGGAAAGAGTTCAGAGTAATGGGCATTGGTCCCTGTTTTGCCCTA
                                                                    | | | |  ||   |||  |  | | ||| |    | |||   |   ||       |||  |     | | |||  ||| |||| || ||    | | ||  | || |  | |||| |||||| | ||||||||||| ||||||||||||||||| ||||||||||||||||||||||||||||| ||||| || |||||  ||||||| || |
-------------------------------------------------------------------gtatgattggctgggcttaatggtgtggtaacaatgtactttgac---tgtcatcagtgagttgtt--ttagcat--tatttgttcttattaccgtgtattggtgttat--gtagGAAGAGCATCGTGCTCGAGATCTGTTTTATGCTCTTTGGGTGCCTGATCTCTTTATGGAAAGAGTTCAGAGCAATGGCCAATGGTCTTTGTTTTGTCCCA

upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 6
gtatggctggattggctcagatcattgtcatatgaccttgatttgtgaaattctctgttattttagtttttaaatatcttcacttgttctattgtatctgctttcttcaccatgtgc--aggtgttgaactacaaataaccataatatctgttgttgttgtttttttttt----tttttttttgcagGAGGAGCATAGGGCTCGAGATCTATTTTATGCTCTTTGGGTACCTGATCTCTTTATGGAAAGAGTTCAGAGTAATGGGCATTGGTCCCTGTTTTGCCCTA
                                                                              |    |||    |   ||   |   |  | || |||| |   |    | | | |  | |     ||  || | || || || |   | | ||    || ||||||| |||| |||||| | ||||||||||| ||||||||||| ||||| ||||||||||||||||||||||||||||| ||||| || |||||  ||||||| || |
-----------------------------------------------------------------------------gtatgattggctgagcttaatggtggtggtaacaatgtactttgactgtcatcaaggagttgttttagcattttttattcttatcactgtattggtgttattttttgtagGAAGAGCATCGTGCTCGAGATCTGTTTTATGCTCTCTGGGTGCCTGATCTCTTTATGGAAAGAGTTCAGAGCAATGGCCAATGGTCTTTGTTTTGTCCCA

upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G15360.1 (Glycine max), 3'ss of exon 5
gtatggctggattggctcagatcattgtcatatgaccttgatttgtgaaattctctgttattttagtttttaaatatcttcacttgttctattgtatct--gctttcttcaccatgtgcaggtgttgaactacaaataaccataatatctgttgttgttgttt--ttttttttttttttttgcagGAGGAGCATAGGGCTCGAGATCTATTT-TATGCTCTTTGGGTACCTGATCTCTTTATGGAAAGAGTTCAGAGTAATGGGCATTGGTCCCTGTTTTGCCCTA
                                                                                     ||   ||||   |   || ||    |  ||  |    || |     |  ||||    || |   | ||| | | |     | ||  | || ||| ||||||| |||||  | ||||||||| | ||| ||||||||||||||  ||||| |||||||||||||||||||||| |||||||| |||||  ||||||||||  
-----------------------------------------------------------------------------------aggtatgattgacgccgggcctttaaaaaaattagttcatgctagttgaagaatagttctatt--ttattgatatagccaaatgttaatgttatttgtgcagGAAGAGCAACGTGCTCGAGATTTTTTTCTATGCTCTTTGGGTGTCTGATATCTTTATGGAAAGAGTTCAGAGCAATGGGCAATGGTCTTTGTTTTGCCCC-

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|161714052|gb|FC064127.1|FC064127
EST:     GGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG                         GAGGAGCATAGGGCTCGAGATCTATTTTATGCTCTTTGGGTACCTGATCTC
genomic: GGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAGgtatggctgg ... ttttttgcagGAGGAGCATAGGGCTCGAGATCTATTTTATGCTCTTTGGGTACCTGATCTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actacaaataaccataatatctgttgttgttgtttttttttttttttttttgcagGAGGAGCATAGGGCTCGAGATCTATTTTATGCTCTTTGGGTACCTGATCTCTTTATGGAAAGAGTTCAGAGTAATGGGCATTGGTCCCTGTTTTGCCCTA
     aaataac  putative branch site (score: 2)
                 tatctgttgttgttgt  putative PPT
             ataatatctgttgttg  TA-rich tract