Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcctccagaacagattttctttcttagtttccttctctgtttctgttcattcacgagtctgaattgaatttgtttaattttgtttcctttgtcttgtgctattatgaatgaagGGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACAGGAAATACCCTACTGGTCTGAGGACAAACAGGGCTACTGAGGCTGGCTA

Basic information

species Vitis vinifera
transcript Vv17s0000g06400.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g06400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os04g38720.1 (Oryza sativa), 3'ss of exon 2
----gtaagtcctccagaacagattttctttcttagtttcctt-ctctgttt--ctgttcattcacgagtctga-----attgaatttgtt---taattttgtttcctttgtcttgtgctattatgaatga-agGGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACAGGAAATACCCTACTGGTCTGAGGACAAACAGGGCTACTGAGGCTGGCTA
    | ||   ||||   ||  | || | |    | | | | | |  || |   ||| | ||| |    |         |||| ||| | |   ||  |    |   ||  |  || | |   || | ||  ||     ||||| ||||| || |||||||||||||| |||||  |||  |||||||| ||||| || || |||||||| |||||||| || ||| | || ||
gtaagcaacctctcctctacttaattacctctgcaatctgcatgcagtgatgaactgatgattgatatatacatggatcattggattggctagctagctaacatctgttgatgctgcgatggaattattggcagCTCTGGCGAAGATGGGGGAGAAGGAGTGGTACTTCTTCTGCCTCAAGGACAGGAAGTACCCGACGGGGCTGAGGACGAACAGGGCGACGGAGTCCGGGTA

upper sequence: Vv17s0000g06400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G10970.1 (Glycine max), 3'ss of exon 1
gtaagtcctccagaacagattttctttcttagtttc-cttctctgtttctgttcat-tcacgagtctgaattgaatttgtttaattttgtttc---ctttgtcttgtgctattatgaatgaagGGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACAGGAAATACCCTACTGGTCTGAGGACAAACAGGGCTACTGAGGCTGGCTA
                            | |||    |    |   | |  |  || ||||   | || |||| |||  ||| | |||  | |    ||  | || || | || ||  || ||||||||| ||||||||||||||||||||||||||||||||||| |||||||| |||||||| |||||  |||| || |||||||| || || ||||| ||
---------------------------gtaagtgaaaccaaaccaatccaatcaatctcacttttatgtattgtattgcttttaattttctccaaaattaatattatgatcttgtg--tgtagGGAAAGCCAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTGAGAGACAGAAAATACCCCACTGGCTTGAGAACCAACAGGGCCACCGAAGCTGGGTA

upper sequence: Vv17s0000g06400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G00930.1 (Glycine max), 3'ss of exon 1
gtaagtcctccagaacagattttctttcttagtttc-cttctctgtttctgttcattcacgagtc-tgaattgaatttgtttaattttgtttcctttgtcttgtgctattatgaatgaagGGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACAGGAAATACCCTACTGGTCTGAGGACAAACAGGGCTACTGAGGCTGGCTA------
                            | |||    |    |   |||  |  ||  ||   || || |||  |||  |||    |||     ||    |||     || ||  |  ||||||||| |||||||||||||| |||||||||||||||||||| |||||||| |||||||| |||||  |||| || |||||||| || || ||||| ||      
---------------------------gtaagtgaaaccaaaccaattcgatcaatctacctttcatgtattatattgatttt-ccttgaaaagttaaaattgcaagtttgtgttt--agggaaagCCAAAATGGGAGAAAAAGAGTGGTACTTTTTCTGTGTGAGAGACAGAAAATACCCCACTGGCTTGAGAACCAACAGGGCCACAGAAGCTGGGTACTGGAA

upper sequence: Vv17s0000g06400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G33270.1 (Glycine max), 3'ss of exon 1
----------------------------------------------gtaagtc--ctccagaacagattttctttcttagtttccttct---ctgtttctgttcattcacgag-----tctgaattgaat--ttgtttaattttgtttc--ctttgtcttgtgc------tattatgaatgaagGGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACAGGAAATACCCTACTGGTCTGAGGACAAACAGGGCTACTGAGGCTGGCTA
                                              || | |   || |  || |  || |||| |   |   || |     | | |||  | |    || |      ||| |||  | |  |||| ||| ||| ||    |||| | |||||       | ||  | ||  ||||||||| ||||||||||| || |||||||||||||||||||| |||||||| |||||||| |||||| ||||||| || || || ||| |  | || ||
gtaagttcaaaacaaaatgaaaaaattcagccccactttggttttggttatttggcttctaaatatgttgtcttacaatgagaccatacggacagattcgatcccgatacaaaaacattctaaatatattgattgtgtaagtttattataactttatgttgtgtgcattttttttgggatacagGGAAAGCTAAAATGGGAGAGAAAGAGTGGTACTTTTTCTGTGTGAGAGACAGAAAATACCCAACTGGTTTGAGGACTAATAGAGCCACTCAATCAGGATA

upper sequence: Vv17s0000g06400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G21020.1 (Glycine max), 3'ss of exon 1
---------------------gtaagtc--ctccagaacagattttcttt-cttagtttccttctctgtttctgttcattcacgagtct-----gaattgaat-------ttgtttaattttgtt----tcctttgtcttgtgc-----tattat------gaatgaagGGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACAGGAAATACCCTACTGGTCTGAGGACAAACAGGGCTACTGAGGCTGGCTA
                       || ||  | |||     | |||  |||  || | |||    | | ||| |||      ||||| |      || |  |||       |||| ||| ||| ||       | |||  |||||     | ||||      |  |  |||||| || ||||||||||| || |||||||||||||||||||| || ||||| |||||||| |||||| ||||||| || || || |||||  | || ||
gtaagttcaaaacaaaattaaaaaattcagccccactttggttttggtttatttggcttctaaatatatttttgtcttacaacgagaccatacagactcaaatatattaattgtgtaagtttattataacattatgttgtgtgcatgttttttattttttgggttacagGGAAGGCCAAAATGGGAGAGAAAGAGTGGTACTTTTTCTGTGTGAGGGACAGAAAATACCCAACTGGTTTGAGGACTAATAGAGCCACTGAATCAGGATA

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|110722695|gb|EE099157.1|EE099157
EST:     AGCTATTGGACAGGTGAATTTGAACAACTCCGAGCCTTGGGAGTTGCCTG                         GGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACA
genomic: AGCTATTGGACAGGTGAATTTGAACAACTCCGAGCCTTGGGAGTTGCCTGgtaagtcctc ... atgaatgaagGGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACA
EST: gi|110731189|gb|EE109129.1|EE109129
EST:     AGCTATTGGACAGGTGAATTTGAACAACTCCGAGCCTTGGGAGTTGCCTG                         GGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACA
genomic: AGCTATTGGACAGGTGAATTTGAACAACTCCGAGCCTTGGGAGTTGCCTGgtaagtcctc ... atgaatgaagGGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACA
EST: gi|110719037|gb|EE096558.1|EE096558
EST:     AGCTATTGGACAGGTGAATTTGAACAACTCCGAGCCTTGGGAGTTGCCTG                         GGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACA
genomic: AGCTATTGGACAGGTGAATTTGAACAACTCCGAGCCTTGGGAGTTGCCTGgtaagtcctc ... atgaatgaagGGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgaattgaatttgtttaattttgtttcctttgtcttgtgctattatgaatgaagGGAAAGCGAAAATGGGAGAAAAGGAGTGGTACTTTTTCTGTGTCAGAGACAGGAAATACCCTACTGGTCTGAGGACAAACAGGGCTACTGAGGCTGGCTA
             gtttaat  putative branch site (score: 4)
     ttgaatttgtttaatt  TA-rich tract