Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgaactaagggctgaactgcattgagtaaagtccacgcattgcaggacgcagtgcttttttaatttagtttggtgctgttgatccactaacatctagtcatgcatttttgttccttatgatattccagGATAACCCATCAGAGAAGGACATTAACCAAGGGACTCTTGTTGTGTTTAATTTGGATGCATCGGTATCAAATGATGACCTTCGTCAAATATTCGGTGCTT

Basic information

species Vitis vinifera
transcript Vv12s0142g00100.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0142g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G12730.1 (Glycine max), 3'ss of exon 4
gtttgaactaagggctgaactgcattgagtaaagtccacgcattgcaggacgcagtgcttttttaatttagtttggtgctgttgatccactaacatctagtcatgcatttttgttccttatgatattccagGATAACCCATCAGAGAAGGACATTAACCAAGGGACTCTTGTTGTGTTTAATTTGGATGCATCGGTATCAAATGATGACCTTCGTCAAATATTCGGTGCTT
                                 ||       ||   ||   || | || | |   |||   |   |    |||||    |  | |    | ||  || ||| |||    ||   || ||||||||||| ||||| || || ||||| ||||| || ||||| ||||| ||||| ||| |||| ||||||||||||||||||||||||||||| || ||||
---------------------------------gtttgattttttttgg---cattactctgt--gtttgactgtttatcattgat--gttgcctttcttttattaatctttcttctgcttg---tttcagGATAACCCCTCAGAAAAAGATATTAATCAAGGAACCCTTGTAGTGTTCAATTTAGATCCATCAGTATCAAATGATGACCTTCGTCAAATATTTGGGGCTT

upper sequence: Vv12s0142g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G42230.1 (Glycine max), 3'ss of exon 3
gtttgaactaagggctgaactgcattgagtaaagtccacgcattgcaggacgcagtgcttttttaatttagtttggtgctgttgatccactaacatctagtcatgcatttttgttccttatgatattccagGATAACCCATCAGAGAAGGACATTAACCAAGGGACTCTTGTTGTGTTTAATTTGGATGCATCGGTATCAAATGATGACCTTCGTCAAATATTCGGTGCTT
                            ||    |    |    |||  |  ||||| ||   | |||    ||| || ||    |    |         |||| ||| ||| |||    ||   |   |||||||||| || || || || ||||| ||||| || ||||| ||||| ||||| ||| |||| ||||| ||||||||||||||||||||||| || ||||
----------------------------gtttgttttttgtg--gcattattcagtgtttgactgattagcattgatgttgc--gtttgtt---------tcattcatctttcttctgcttg---tcttagGATAACCCCTCGGAAAAAGATATTAATCAAGGAACCCTTGTAGTGTTCAATTTAGATCCATCAGTATCCAATGATGACCTTCGTCAAATATTTGGGGCTT
















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|161713064|gb|FC062145.1|FC062145
EST:     ATAAGCCCTTAAGACGAAGGAAACTTGACATTCATTTTTCAATTCCCAAG                         GATAACCCATCAGAGAAGGACATTAACCAAGGGACTCTTGTTGTGTTTAAT
genomic: ATAAGCCCTTAAGACGAAGGAAACTTGACATTCATTTTTCAATTCCCAAGgtttgaacta ... gatattccagGATAACCCATCAGAGAAGGACATTAACCAAGGGACTCTTGTTGTGTTTAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctgttgatccactaacatctagtcatgcatttttgttccttatgatattccagGATAACCCATCAGAGAAGGACATTAACCAAGGGACTCTTGTTGTGTTTAATTTGGATGCATCGGTATCAAATGATGACCTTCGTCAAATATTCGGTGCTT
           cactaac  putative branch site (score: 1)
                                         ttatgatatt  TA-rich tract