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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgttggtatatgttgtggactttatattagttcttctaaacactctcttgccaccccactgtgctgaagtcagtgattgtcgtctttataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATGTTTGTGGTAGGAGTAAATGAGACTTCATACAAGCCAAGCATGAATATTG

Basic information

species Vitis vinifera
transcript Vv19s0085g00600.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 3'ss of exon 7
gttcgttggtatatgttgtggactttatatta--gttcttctaaacactctcttgccaccccactgtgctgaa-gtcagtgattgtcgtctttataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATGTTTGTGGTAGGAGTAAATGAGACTTCATACAAGCCAAGCATGAATATTG
    ||| ||| |   | |   || || |||    |    || |  | |  |  ||      | ||     || |    || || |   | || |  || |||| ||||| |||||||| || || || ||||||||||| ||||| || |||||||| || |||||||||||||     ||  | || |  |||||| |||
----gtttgtacaccattt---ctatacattgccatctaactgagaaatggcaagcttttatattggataaaatggtgatgtttttatgccttgtt-tgtagGGCGGTGCTAAGAAAGTTGTGATATCTGCTCCATCAGCAGATGCTCCAATGTTTGTCGTTGGAGTAAATGAGAAGAGCTATGATCCTAAAATGAATGTTG

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os06g45590.1 (Oryza sativa), 3'ss of exon 7
gttcgttggtatatgttgtggactttatattagttcttctaaacactctctt-gccaccccactgtgctgaagtcagtgattgtcgtctttataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATGTTTGTGGTAGGAGTAAATGAGACTTCATACAAGCCAAGCATGAATATTG
||| |    |  || ||    |     |  | |    ||  || |    ||  ||||  |   ||     ||  | | ||||  | |||   | ||  |||||||||| | |||||| || || || |||||||| || ||||| || |||||||| || |||||||||||||     ||||| || ||||||||| |||
gtttgcctctgcat-ttacacaacccct-ctggccaatcagaaaataaactaagccattcacatgcaaaaaatgctgagatt-ccatctggcttatatagGGTGGTGCAAGGAAAGTAGTGATATCTGCTCCATCCGCAGATGCTCCTATGTTTGTAGTCGGAGTAAATGAGAAGAATTACAACCCCAGCATGAATGTTG

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 7
gttcgt-tggtata-tgttgtggactttatattagttcttctaaacactctcttgccaccccactgtgctgaagtca----gtgattgtcgtctttataat-gcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATGTTTGTGGTAGGAGTAAATGAGACTTCATACAAGCCAAGCATGAATATTG
||| || |   | | |          ||  |  |   | ||||   |||  ||    | |      |   |||  ||    | | ||   |   |  || |  ||||||||||| ||||||||||| || || || |||||||||||||| || |||||||| || ||||| ||||||| |   ||  | ||||  |||||| |||
gtttgtgtaccagactaccaccagtcttcaacaatgacatctattaactaactacatatcttttcatatcgaaaacatgttgaggtttctgctgtcttatttacagGGTGGTGCAAAGAAAGTGGTGATATCTGCACCATCAGCTGATGCTCCCATGTTTGTAGTTGGAGTTAATGAGAATAGCTATGATCCAAAGATGAATGTTG

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G051004_T01 (Zea mays), 3'ss of exon 7
gttcgttggtatatgttgtggactttatattagtt-cttctaaac-actctcttgccaccccactgtgctgaagtca----gtgattgtcgtctttataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATGTTTGTGGTAGGAGTAAATGAGACTTCATACAAGCCAAGCATGAATATTG
||| ||  |||   |   |  | ||| ||  | |  | |||||   |||  ||    | |     ||   |||  ||    | | ||    |  ||    | ||||||||||| ||||||||||| || || || |||||||| ||||| || |||||||| || ||||| ||||||| |   ||  |  | |  |||||| |||
gtttgt--gtaccagacttctaatttctaacaatgacatctaattgactaactacatatcttttcgtatcgaaaacatgttgaggtttcttttgtttgtttacagGGTGGTGCTAAGAAAGTGGTGATATCTGCACCATCAGCAGATGCTCCCATGTTTGTAGTTGGAGTTAATGAGAATAGCTATGATTCGAAGATGAATGTTG

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G22790.1 (Glycine max), 3'ss of exon 7
gttcgttggtatatgttgtggactttatattagttcttctaaacactctcttgccaccccactgtgctgaagtcagtgattgtcgtctttataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATGTTTGTGGTAGGAGTAAATGAGACTTCATACAAGCCAAGCATGAATATTG
           |||    |   || | |||||  | || |        ||| | |   ||| | |  | |  | ||   || || | |||| | |  ||| ||||||||||||||| ||||| ||||||||||| || |||||||| ||||||||||||||||| |||||||   ||||||| ||||  ||| | ||||
----------gtattcaattacctgtgtattaagtgttgtctcattcatctcgtc--tccattatcttaatttgagct-ttatc-tttttacactctagGCTGGTGCCAAGAAAGTTGTAATATCAGCTCCATCGGCGGATGCACCAATGTTTGTGGTAGGAGTGAATGAGAAGACATACAACCCAAAAATGGACATTG

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G09020.1 (Glycine max), 3'ss of exon 7
----------gttcgt-tggtatatgttgtggactttatattagttcttctaaacactctcttgccaccccactgtgctgaagtcagtgattgtcgtctttataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATGTTTGTGGTAGGAGTAAATGAGACTTCATACAAGCCAAGCATGAATATTG
              || |  ||  |||||      ||   ||   ||  ||     ||  ||  |  |  ||         | |  | | ||    | |||| | || ||| ||||||||||||||| ||||| ||||||||||| || |||||||| ||||||||||||||||| |||||||   ||||||| ||||  ||| | ||||
gtatccaattacctgtctactaagtgttgcttctctttccttgtctcccctgt---cttactctctccagcatcaaatcttaatttgagctttatctttttacactgtagGCTGGTGCCAAGAAAGTTGTAATATCAGCTCCATCTGCAGATGCACCAATGTTTGTGGTAGGAGTGAATGAGAAGACATACAACCCAAAAATGGACATTG

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 7
gttcgttggtatatgttgtggactttatattagttcttctaaacactctcttgccaccccactgtgctgaagtcagtgattgtcgtctttataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATGTTTGTGGTAGGAGTAAATGAGACTTCATACAAGCCAAGCATGAATATTG
           || ||| |   | |   |  |  | || |  ||  | | ||   |    | |||       |   |  |  |||| ||||||     ||| ||||||||||||||  ||||||| || || || ||||| ||||| |||||||| || |||||||| |||    ||||| | |||| |||| |||| |
----------gtacgtttt---catacaaacaaatgttgtcgaccttgttttattattatattgttt---gcttgatattcatcgtttttata-----gGGCGGTGCCAAGAAAGTTATAATTTCTGCCCCTTCTGCTGACGCACCTATGTTTGTTGTTGGAGTAAACGAGCACACATACCAACCAAACATGGATATAG

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|71863317|gb|DT012372.1|DT012372
EST:     AATCTTCTGGAGTTTTCACAACAACCGAGAAGGCTTCTGCACACATAAAG                         GGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATG
genomic: AATCTTCTGGAGTTTTCACAACAACCGAGAAGGCTTCTGCACACATAAAGgttcgttggt ... tataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATG
EST: gi|30131309|gb|CB916648.1|CB916648
EST:     AATCTTCTGGAGTTTTCACAACAACCGAGAAGGCTTCTGCACACATAAAG                         GGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATG
genomic: AATCTTCTGGAGTTTTCACAACAACCGAGAAGGCTTCTGCACACATAAAGgttcgttggt ... tataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actctcttgccaccccactgtgctgaagtcagtgattgtcgtctttataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATGTTTGTGGTAGGAGTAAATGAGACTTCATACAAGCCAAGCATGAATATTG
                                      tcgtcttt  CT-rich tract
                                         tctttataat  TA-rich tract