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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcttttttaacttgctgctattattggctttgcattaactttgatgctaacataattcatttattcagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAAACTATCCCTTCAGAACCAAGTGCAATAGACAGAACTGTGGGGCCGATAA

Basic information

species Vitis vinifera
transcript Vv01s0010g03700.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os08g41010.4 (Oryza sativa), 3'ss of exon 8
----------------gtgagttcttttttaacttgctgctattattggctttgca----ttaactttg----atgctaacataattcatttatt--cagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAAACTATCCCTTCAGAACCAAGTGCAATAGACAGAACTGTGGGGCCGATAA
                 || ||     ||     |  | ||  || ||||||||      |||| | |     ||  | ||||     ||||  |  |||||| ||||||||| || || ||||||||||| |||||||| |  |||||||||||||| ||| | || || || ||  | |  |  || | ||| || ||
ccacattgcataagttatgcgtgtcacttagcactagttcttgtaatggctttgtcctttttaattctatataatctttacatctaatatttcatggcagAACCAAAGATGCCAGAAGGTAGTTGGAAGTGCGAGAAGTGCAATAACATAAACTATCCATTCCGCACAAAATGTAACCGTCCAAGTTGCGAGGCTGAAAA

upper sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G107106_T06 (Zea mays), 3'ss of exon 7
-----------------gtgagtt-cttttttaacttgctgctattattggct-ttgcattaactttgat---gctaacata--attcatttatt--cagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAAACTATCCCTTCAGAACCAAGTGCAATAGACAGAACTGTGGGGCCGATAA
                  || | | |||| |  | | |    | |  ||   | || ||| || | || |    || |||    |  |  | |||   ||||  ||||||||| || || ||||||||||||||| |||| |  |||||||| ||||| ||| |||| || |||||| | |   | ||||| || || ||
attttcgcacataaattatgggctactttatctaatggtctatgtagtttattgttccatcaattctgttcgaactcacaccccaacctctaattgatagAAGCAAAGATGCCAGAGGGCAGTTGGAAGTGTGAGCAGTGCAATAACATAAATTATCCTTTCCGAACAAAATGCAATCGTCCCCAATGTGGAGCAGAAAA

upper sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G134770_T03 (Zea mays), 3'ss of exon 8
------------------gtgagttcttttttaacttgctgctattattggct-ttgcattaactttg---atgctaacat----aattcatttattcagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAAACTATCCCTTCAGAACCAAGTGCAATAGACAGAACTGTGGGGCCGATAA
                   || | |  ||| |    || |   || |||   | || ||| || | |    |   | |||     |  | ||||    ||||| |||||  || || || ||||||||||||||| |||| |  |||||||||||||| ||| |||| || |||||| | |   | ||||| || || ||
atttttcgcacataacttatgggctagtttatctaatggtagaataatttattgttccatcaattctattcaaatttacaccccaatcttattttgatagAACCAAAGACACCAGAGGGCAGTTGGAAGTGTGAGCAGTGCAATAACATAAACTATCCTTTCCGAACGAAATGCAATCGTCCCCAATGTGGAGCAGAAAA

upper sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G36990.2 (Glycine max), 3'ss of exon 8
------------------------------------gtgagttcttttttaacttgctgctattattggctttgcat-----------taactttgatgc--taacataattcatttattcagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAAACTATCCCTTCAGAACCAAGTGCAATAGACAGAACTGTGGGGCCGATAA
                                    ||||  | | |  ||| |     || |||     |    |            ||| | || | |  |    | |||  |  ||||||| |||||||||||||| ||||| |||||||| || ||||||| ||||||||||||||| ||||||||||||||||| |||||||| ||||| || || ||
gtaagtagcttcccaggctcccccatgataccatctgtgatctgtctcataattcatgtcttttacctaatacaaaagcaacagttggtaattatgtttctttgtttttatttttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAAACTATCCTTTCAGAACCAAGTGCAACAGACAGAATTGTGGTGCTGACAA

upper sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA18G00920.1 (Glycine max), 3'ss of exon 8
----------------------------------------gtgagttcttttttaacttgctgctattattggctttgcattaactttgatgctaacata-attcatttattcagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAAACTATCCCTTCAGAACCAAGTGCAATAGACAGAACTGTGGGGCCGATAA
                                         | | |  | |  | || || | | |        || | | | |  ||  |  | ||||  |||  |   |||||| |||||||||||||| ||||| |||||||| || ||||||| ||||||||||||||| ||||||||||||||||| |||||||| ||||| || || ||
gtaagtagcttcccaggctcccgcatgacaaatctgtcacataaatgatgtcgttacctgatacaaaacaacagttggtaattatgtt--tctttacatgtatttttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAAACTATCCTTTCAGAACCAAGTGCAACAGACAGAATTGTGGTGCTGACAA

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|349808005|gb|FQ402396.1|FQ402396
EST:     GCTGCAAAATCTGAGAAGAATTCTA                         AACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAA
genomic: GCTGCAAAATCTGAGAAGAATTCTAgtgagttctt ... atttattcagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAA
EST: gi|349815268|gb|FQ400423.1|FQ400423
EST:     GCTGCAAAATCTGAGAAGAATTCTA                         AACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAG
genomic: GCTGCAAAATCTGAGAAGAATTCTAgtgagttctt ... atttattcagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAG
EST: gi|110381005|gb|EC946312.1|EC946312
EST:     GCTGCAAAATCTGAGAAGAATTCTA                         AACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAA
genomic: GCTGCAAAATCTGAGAAGAATTCTAgtgagttctt ... atttattcagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgctattattggctttgcattaactttgatgctaacataattcatttattcagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAAACTATCCCTTCAGAACCAAGTGCAATAGACAGAACTGTGGGGCCGATAA
                               tgctaac  putative branch site (score: 1)
                                          ttcattt  putative PPT
                                  taacataattcattta  TA-rich tract