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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttcaatgtcgtttccacaagataaactaactcgtatcaaggtattgattacttatttgctcatgttttagATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAACCTACAGTGATCACATAAGGCACATTCCCAGTCAATTTCATTGTCCAATG

Basic information

species Vitis vinifera
transcript Vv16s0022g02320.t01
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G025854_T01 (Zea mays), 3'ss of exon 21
-----------------gttagttcaatgtcgtttccacaagat-aaactaactcgtatcaaggtattgattacttatttgctcatgttttagATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAACCTACAGTGATCACATAAGGCACATTCCCAGTCAATTTCATTGTCCAATG
                  |   |  ||| |  | |   |||  |  || | | |   ||     || | | |  ||  |   |  |  |  |||  |||| || ||| | |||||||||||||||||||||||||| ||||||||||| || || ||||                                  
gttactatcttgtgctcttccatggaattttttatattcaactttgaaattatttacatgccaatacttaatctttgataatttctaatgcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAACCTACTGTCATAACAT----------------------------------

upper sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G025854_T02 (Zea mays), 3'ss of exon 21
-----------------gttagttcaatgtcgtttccacaagat-aaactaactcgtatcaaggtattgattacttatttgctcatgttttagATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAACCTACAGTGATCACATAAGGCACATTCCCAGTCAATTTCATTGTCCAATG
                  |   |  ||| |  | |   |||  |  || | | |   ||     || | | |  ||  |   |  |  |  |||  |||| || ||| | |||||||||||||||||||||||||| ||||||||||| || || ||||| | |   ||         |||      |   ||
gttactatcttgtgctcttccatggaattttttatattcaactttgaaattatttacatgccaatacttaatctttgataatttctaatgcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAACCTACTGTCATAACATAGGCCCTGTTTGTTTCGGCTTTTGGCAGCTTCTG

upper sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA20G29230.1 (Glycine max), 3'ss of exon 21
gttagttcaatgtcgtttccacaagataaactaac-tcgtatcaaggtattgattac----ttatttgctcatgtttt-----agATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAACCTACAGTGATCACATAAGGCACATTCCCAGTCAATTTCATTGTCCAATG--
|||| ||  || |       | || ||| | |||| |   |   |  ||||   ||      |  |||||| | || |     |||||||||  ||||  |||| |||||||| ||||||||||| |||||||| |||||||| ||||||||| | ||| | |||  |||   | |  || | |   
gttattttcattttaccaatataaaatatagtaacatttgaatgacttattttctatgcgactgattgctcttattatcatgcagATTTGGCAATATCCATGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGCCTACAGTTATCACATAATGGACAATTCCA--CAACCACTTGATCAAGTTGT

upper sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA10G38590.1 (Glycine max), 3'ss of exon 21
--------------gttagttcaatgtcgtttccacaagataaactaactcgtat-caaggtattgattacttatttgctcatgttttagATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAACCTACAGTGATCACATAAGGCACATTCCCAGTCAATTTCATTGTCCAATG--
                 || | ||      |  || || || |  |  ||  | | | | |      | | |  | |    ||  |  |||||||||  ||||  |||| |||||||| ||||||||||| |||||||| |||||||| ||||||||| | ||| | |||  |||   | |  || | |   
gttattttcatttaccaagataaaatgtaataacataaaatgactttgcttattttctatgcgcgattgattgctcttactattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGCCTACAGTCATCACATAATGGACAATTCCA--CAACCACTTGATCAAGTTGT

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|351031398|gb|FQ445423.1|FQ445423
EST:     TGTCTCTAAACATGAAATGGATGCCCAAGCAGCATTGAAGCCATTGATAG                         ATTTGGCGTTATCTTTGTCAAAGCTCAAGGACTTCACAGGAAGGGAGAAAC
genomic: TGTCTCTAAACATGAAATGGATGCCCAAGCAGCATTGAAGCCATTGATAGgttagttcaa ... catgttttagATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAAC
EST: gi|110429629|gb|EC996127.1|EC996127
EST:     TGTTTCTAAACATGAAATGGATGCCCAAGCAGCATTGAAGCCATTGATAG                         ATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAAC
genomic: TGTCTCTAAACATGAAATGGATGCCCAAGCAGCATTGAAGCCATTGATAGgttagttcaa ... catgttttagATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAAC
EST: gi|32249648|gb|CD715467.1|CD715467
EST:     TGTTTCTAAACATGAAATGGATGCCCAAGCAGCATTGAAGCCATTGATAG                         ATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAAC
genomic: TGTCTCTAAACATGAAATGGATGCCCAAGCAGCATTGAAGCCATTGATAGgttagttcaa ... catgttttagATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagataaactaactcgtatcaaggtattgattacttatttgctcatgttttagATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAACCTACAGTGATCACATAAGGCACATTCCCAGTCAATTTCATTGTCCAATG
                                       tttgctc  CT-rich tract
                          tattgattacttattt  TA-rich tract