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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttgatattcccttttcaaaatttgttttttcacatggtattccttgttgatcttttccctttttgacttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTCGAAGGTTAACTGGGTTATGAATCGTGCATTATTTTCTTCCCACTGCTAT

Basic information

species Vitis vinifera
transcript Vv11s0016g03130.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os01g67870.1 (Oryza sativa), 3'ss of exon 10
gtttttgatattcccttttcaaaatttgttttt---tcacatggtattccttgttgatcttttccctttttgacttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTCGAAGGTTAACTGGGTTATGAATCGTGCATTATTTTCTTCCCACTGCTAT
||  |  | ||| | | ||  ||  || | | |     |||   ||| |||| |  ||   |   || | |   || || ||||||||||||||| | ||||| ||||| |||||||||||||||||  | || |||||||||||| | ||||| |||||| ||||| | || |||||||||
gtactacaaatttcatattgtaaccttatgtataggcaacaaattatcccttttacatacatatgctctatc-tttatgcagATACTGGAATTACCTAAGGAAACAAACTTTTGTTCTTGAATCATATGTATCAAAGGTTAACTGGATGATGAACCGTGCACTATTTGCATCGCACTGCTAT

upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G061419_T01 (Zea mays), 3'ss of exon 10
----------------------gtttttgatattcccttttcaaaatttgttttttcacatggtattccttgttgatcttttccctttttgacttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTCGAAGGTTAACTGGGTTATGAATCGTGCATTATTTTCTTCCCACTGCTAT
                      |    || |  | |     |||  | ||  | || || |  || |  ||  |     |     ||| |   |  || ||||||||||||||| | ||||| ||||| |||||||| || |||||  | ||||| || |||||| | ||||| |||||||||||| |   ||| ||||||
atactttgggtttcttttctgtgcacatgtttatgctaaaccaatgtatgcatcttaac-taatactgttttcttcatatacatgtttgtttttcatgcagATACTGGAATTACCTCAGGAAACAAACTTTTGTTCTCGAGTCATATGTATCGAATGTAAACTGGATGATGAACCGTGCATTATTTACAAGCCATTGCTAT

upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 9
gtttttgatattccct--tttcaaaatttgttttttcacatggtattccttgttgatcttttccctttttgacttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTCGAAGGTTAACTGGGTTATGAATCGTGCATTATTTTCTTCCCACTGCTAT
|||| ||||  || ||  | | | | || | || ||  | |        ||| |||| |  |   ||||| |   ||||||||| ||||||||||||||||| |||||||||||| | || |||||  |  | || ||||||||||| ||||| |||||||| ||| || |||||||||||
gtttgtgattatcactcgtcttacatttagcttctttgcgta------tttgatgatttaatttattttttaac-gtgtagATATTGGAATTACTTGAGGAAACAAACATTTGTTTTGGAGTCATATTTAACAAATGTTAACTGGGTGATGAACCGTGCATTGTTTACTACCCACTGCTAT

upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G03760.1 (Glycine max), 3'ss of exon 10
gtttttgat-att-cccttttcaaaatttgttttttcacatggtattccttgttgatcttttccctttttgacttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTCGAAGGTTAACTGGGTTATGAATCGTGCATTATTTTCTTCCCACTGCTAT
|||| |||| ||| | | | | ||| |  |||| ||  |   |||||      ||||  |||   ||||| || |||||||||| ||||||||||||||||| |||||||| ||| | || |||||  |  | || ||||||||||| ||||| |||||||| ||| || |||||||||||
gtttgtgattattactcgtcttaaattaagtttctttgc---gtatt------tgatgatttaattttttaacatgtgtagATATTGGAATTACTTGAGGAAACAAACATTCGTTTTGGAGTCATATTTAACAAATGTTAACTGGGTGATGAACCGTGCATTGTTTACTACCCACTGCTAT

upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 9
gtttttgatattcccttttcaaaatttgttttttcacatggtattccttgttgatcttttccctttttgacttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTCGAAGGTTAACTGGGTTATGAATCGTGCATTATTTTCTTCCCACTGCTAT
|||| ||||  |  ||   |  || ||    ||||||    ||||     || ||  ||          ||  ||| || ||||||||||| |||||||| |||||||||||| | || |||||  |  | || |||||    || ||||| |||||||||||| ||   ||||| |||
gtttgtgattattgctcacccgaaattaaagtttcaccatatattttccattaattattca-------aacacgtgcagGTACTGGAATTATTTGAGGAAACAAACATTTGTTTTGGAGTCATATGTAACCAAAGTTAATCAAGTAATGAACCGTGCATTATTTGCTGTTCACTGTTAT

upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA16G08510.1 (Glycine max), 3'ss of exon 9
gtttttgatattcccttttcaaaatttgttttttcacatggtattccttgttgatcttttccctttttgacttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTCGAAGGTTAACTGGGTTATGAATCGTGCATTATTTTCTTCCCACTGCTAT
|||| ||||  |  ||   |  || ||     |||||    || ||    || |   ||          || |||| || ||||||||||| |||||||| |||||||||||| | || |||||  |  | || ||||||   || ||||| |||||||||||| ||   ||||| |||
gtttgtgattgttgctcacctgaaattagagattcaccgtatactctccattaaatattca-------aacatgtgcagGTACTGGAATTATTTGAGGAAACAAACATTTGTTTTGGAGTCATATGTAACCAAAGTTAACCAAGTAATGAACCGTGCATTATTTGCTGTTCACTGTTAT

upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 10
---gtttttgatattccctt-ttcaaaatttgttttttcacatggtat---tccttgttgatcttttccctttttgacttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTCGAAGGTTAACTGGGTTATGAATCGTGCATTATTTTCTTCCCACTGCTAT
     || | ||||   ||| ||  |||  |    |     ||  |     | |||    || | |   ||||||   || | |||||||||||| |||||||| || ||||| ||||| || ||||||||||| ||||| ||||||||| | |||||    || || ||| ||  ||| || |||
gtacattctcatatctacttgtttgaaacataagatactgaatatttcagatgcttaacaatttctattcttttttgttt-tatagATACTGGAACTACTTGAGAAAACAAACCTTTGTGCTAGAATCATACATATCGAAAGTTAACTGGATAATGAACAAGGCTTTGTTTGCTGTCCATTGTTAT

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|294965468|gb|GW839039.1|GW839039
EST:     CCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAG                         ATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTC
genomic: CCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAGgtttttgata ... acttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttttttcacatggtattccttgttgatcttttccctttttgacttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTCGAAGGTTAACTGGGTTATGAATCGTGCATTATTTTCTTCCCACTGCTAT
                                        ttttgac  putative branch site (score: 3)
                              tcttttccctttttga  CT-rich tract
     tttttca  TA-rich tract