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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttatcctccactactattcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT

Basic information

species Vitis vinifera
transcript Vv08s0007g01790.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os03g61050.1 (Oryza sativa), 3'ss of exon 10
gtaagttatc-ctccactactattcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgccttta-----ttacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT
||| |  ||  ||   || || | ||  ||  ||  | ||||  ||||| |    |||     ||       |   ||||      | |||| || || |||||  |||| || |||||||||||||||||||| || |||||||||||||| ||||||||||||||||| || ||||| || |||||  ||
gtatgacatttcttgtctgctttgca-attctgtact-ctgtacaatttct--ggattcaacaaagtggctcacttctttgcatattgacagGTACAGTATGGTTTTGGCTGATAATGTTGATGGTGGAGATGACCTCGATCTTATTGTTACTACCATGAATGGCAATGTCTTCTGCTTCTCCACTCCCTCT

upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G105976_T01 (Zea mays), 3'ss of exon 2
---gtaagttatcctccact----actatt-------catgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttatt-acagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT
   | || |||| |||  ||       |||       ||| ||| | |    |  |||  |    ||| |  | | |   | |     | || | | |||| || | ||||||  |||| |||||||| ||||| ||||| |||||||||||||||||||| || ||||| ||||| || ||| ||||||| |||||  | 
tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcact-tctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA

upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G479744_T01 (Zea mays), 3'ss of exon 6
--gtaagttatcctcc--actactattcatgtttagttttactgtttaattt----ttcaaaatttgtttaaaata---taaatg-----cctttatta-cagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT
   |   ||||| ||    ||  | |  ||||||  | | | || |     |    | ||  ||||   |||| |    | | ||     | || | |  ||| || |  |||||  |||| || || || |||||||||||||| ||||||||||||||||| || ||||||||||| || || ||||| || ||||   | 
gtatgccttatcttctttgcttttctagatgtttgatatcattgctggggattgggtacatcatttccataaagtgggctgattgttgcactttgactgtcagGTACACTATGGTTTTGGCTGATAACGTGGATGGTGGAGATGACCTTGATCTTATTGTTACCACTATGAATGGCAACGTCTTCTGCTTCTCCACTCAATCA

upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 12
gtaagttatcctcca-ctactat-tcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT
|||||  || ||  | ||  ||| ||  |  ||   || |||||  | |||    || || | |   ||         ||| |||||| |||||||||||| |||| ||||||||||||||||| |||||||||||||| ||||| ||||| |||||||||||||| || ||||| ||||| ||  ||
gtaagagattctttaactgttatctctcggatatgctttctgttctactttcttgaagttatgtgccat--------tttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT

upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA01G27250.2 (Glycine max), 3'ss of exon 10
gtaagttatcctccactactattcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT
|||||  || ||  |       || ||  ||   || ||||   | |||    || || | |   ||          ||  ||||| |||||||||||| |||| ||||| ||||||||||| |||||||||||||| ||||| ||||| |||||||||||||| || ||||| ||||| ||  ||
gtaagagattctttaacctgtctcttgaatatgctttctgtcctactttcttgaagttatgtgccat--------tctttctacagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACTATGAATGGCAATGTCTTCTGCTTCTCAACCCCGTCT

upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
gtaagttatcctccactactattcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgccttt---attacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT
                    | |  || ||  | |       |||| | |  |    | |||  |  |  |||| ||||    ||||||||| ||||||||| |||| || |||||||| |||||||||||||| |||||||||||  |||| |||||||| || || |||||||| ||||| ||| ||
-------------gtaagtcacttttgcttcctctcggcacgtaatatctttag---tattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT

upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: PP1S334_25V6.1 (Physcomitrella patens), 3'ss of exon 10
----gtaagttatcctccactactattcatgtttagttt-tactgtttaatttttcaaaatttgtttaaaat--ataaatgcctttatt-------acagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT
     | |  | |  | ||  | | |  |  ||  |||  || |||    || | |  | |   ||   ||   ||     |||   |         ||| ||||||||||| || || |||||||| ||||| || |||||  | ||| | ||||| |||||||||||||| ||||| | ||| ||    || ||||||
ttacattacattttttacatcattttcgagattcggttagtagtgtaggcttgtacgtagtgctttggcaaccaatggtaacctccgtctacactcgcagGTATAGCATGGTGCTAGCAGACAATGTGGATGGAGGCGATGACTTGGATTTGATTGTCACAACCATGAATGGTAATGTTTATTGTTTCCAGACACCTGCT

upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ23254 (Selaginella moellendorffii), 3'ss of exon 10
gtaagttatcctccactactattcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT
    || | |||| |   ||  || || |||    ||||||||  |||||                           |  ||||||||||| ||||||  | | ||| |||||||| || || || ||||| ||||| || ||||||||||||||||| || || |  || ||   ||| || |  
----gtaagcctcgagagctgctcgtgatta--cgtactgtttctttttt---------------------------tcgttacagATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCTGATAGTTACAACCATGAATGGAAACGTCTACTGTTTCCAAACCCCAGTG

upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ25263 (Selaginella moellendorffii), 3'ss of exon 10
gtaagttatcctccactactattcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT
    || | |||| |   ||  || || |||    ||||| ||  |||||                          ||  ||||||||||| ||||||  | ||||| |||||||| || || || ||||| ||||| || ||||||||||||||||| || || |  || ||   ||| || |  
----gtaagcctcgagagctgctcgtgatta--cgtactgatttcttttt--------------------------ttcgttacagATATACCATGGTTTTAGCGGAGAATGTTGACGGAGGCGACGATCTCGATCTGATAGTTACAACCATGAATGGAAACGTCTACTGTTTCCAAACCCCAGTG

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|351053644|gb|FQ440153.1|FQ440153
EST:     ATAGATGGACCCACATCGTGTGCTGATGTTGTTGATATTGGTGAAACTTC                         ATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCT
genomic: ATAGATGGACCCACATCATGTGCTGATGTTGTTGATATTGGTGAAACTTCgtaagttatc ... tttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCT
EST: gi|56409013|gb|CX017265.1|CX017265
EST:     ATAGATGGACCCACATCATGTGCTGATGTTGTTGATATTGGTGAAACTTC                         ATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCT
genomic: ATAGATGGACCCACATCATGTGCTGATGTTGTTGATATTGGTGAAACTTCgtaagttatc ... tttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCT
EST: gi|56409203|gb|CX017455.1|CX017455
EST:     ATAGATGGACCCACATCATGTGCTGATGTTGTTGATATTGGTGAAACTTC                         ATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCT
genomic: ATAGATGGACCCACATCATGTGCTGATGTTGTTGATATTGGTGAAACTTCgtaagttatc ... tttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCT
EST: gi|56409023|gb|CX017275.1|CX017275
EST:     ATAGATGGACCCACATCATGTGCTGATGTTGTTGATATTGGCGAAACTTC                         ATATAGCATGGTCCTGGCGGACAGTGTTGATGGTGGAGATGATCTTGATCT
genomic: ATAGATGGACCCACATCATGTGCTGATGTTGTTGATATTGGTGAAACTTCgtaagttatc ... tttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCT
EST: gi|56409288|gb|CX017540.1|CX017540
EST:     ATAGATGGACCCACATCATGTGCTGATGTTGTTGATATTGGTGAAACTTC                         ATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCT
genomic: ATAGATGGACCCACATCATGTGCTGATGTTGTTGATATTGGTGAAACTTCgtaagttatc ... tttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT
        gtttaat  putative branch site (score: 4)
                                           cctttatt  putative PPT
         tttaatttttcaaaat  TA-rich tract