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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgtttgttccaaaatgtaaactgatttttttctacgctcttttctctctctaatttatctttgcttttagatccgttttctatttcgtaacggcagattat...

Basic information

species Zea mays
transcript GRMZM2G095348_T02
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 16
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 5'ss of exon 17
TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgtttgttccaaaatgtaaactgatttttttctacgctcttttctctctctaatttatctttgcttttagatccgtt--ttctatttcgtaacggcagattat--
||||||| |||||||||||||||||||| |||||||||||||||||| | |||| ||||||||| |||||| |||||||||||||||| ||||| |||| ||| ||| |  | | |    ||||      | | |   || | |   | |  |   | |||   |||  | | |||  ||   |||| |||        |    
TACTTCTTAGTTTGATTGAGTACAAGACACTTGTGATGCGTGGGGATATTGAACGTGCAAATGATATTTTACCATCCATACCAAAGGCGCAATATAATAAgttagttgctgacttt----tgatccaaaacaatgagtttcttttattttggtacctgtttctctttgaacctgttgatttggtttcttaataattttgttcct

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 16
lower sequence: LOC_Os06g05180.4 (Oryza sativa), 5'ss of exon 1
TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgtttgttccaaaatgtaaactgatttttttctacgctcttttctctctctaatttatctttgcttttagatccgtt--ttctatttcgtaacggcagattat--
                      |||||| |||||||||||||||||| | |||| ||||||||| |||||| |||||||||||||||| ||||| |||| ||| ||| |  | | |    ||||      | | |   || | |   | |  |   | |||   |||  | | |||  ||   |||| |||        |    
----------------------CAAGACACTTGTGATGCGTGGGGATATTGAACGTGCAAATGATATTTTACCATCCATACCAAAGGCGCAATATAATAAgttagttgctgacttt----tgatccaaaacaatgagtttcttttattttggtacctgtttctctttgaacctgttgatttggtttcttaataattttgttcct

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 16
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 17
TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgtttgttccaaaatgtaaactgatttttttctacgctcttttctctctctaatttatctttgcttt-tagatccgttttctat-ttcgtaacggcagattat
| ||| | || ||||||||||||||||| |||||||||||||| |||||||||   || ||||||||| || |||| || || || |  ||  | || ||||  |    |   |||     ||   |  |  |   |||||          |  |||  ||| | | |  |    ||    || ||  |     |||| |  
TGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCCAAAGAGCATCATAACAGgtaggacttaccttgttgcaagacaatgattgattttctttcaatatgtagaaatatgcttgatatgtgtagaaattaaaaatgtttttggtaacagaat--

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 16
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 17
TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgtttgttccaaaatgtaaactgatttttttctacgctcttttctctctctaatttatctttgcttttagatccgtttt--------ctatttcgtaacggcagattat
||||| | ||||||||||| |||||||| ||||| |||||||| |||||||||   || ||||||||| || |||| || || || |  ||  | || ||||       |   | |    || | ||     | |  | || || ||| || ||     ||   ||| |||  |||||        || ||| |||| ||        
TACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCTAAAGAGCATCATAACAGgtagtagttattttctgttatgttgttacggaatgacccttactttctttatttagaaattatgttt-gatatgttttgagaaaggcttttttgtaagggt-------

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 16
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 17
TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgtttgttccaaaatgtaaactgatttttttctacgctcttttctc-tctctaatttatctttgct---tttagatccgttt--tctatttcgtaacggcagattat---
| ||| | || ||||||||||||||||| |||||||||||||| |||||||||   || ||||| ||| |  |||| || || || |  ||  | || ||||        | | || |  | |  || |  |||| |      |  |   ||||||   ||   |   || | ||  | ||  | | | | | ||    | ||  |   
TGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGATATTCTGCCATCAATCCCCAAAGAGCATCATAACAGgt--------agaagttagtt-accttgtgttacgttgcaagataatgattaattttctttcaatatgttgaaatatgcttgatatgtgtagaaattaaaaatgctttt

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 16
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 17
TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgtttgttccaaaatgtaaactgattttttt--ctacgctcttttctctctctaatttatctttgcttttagatccgttttc--tatttcgtaacggcagattat
|  | || ||  |||||||||||||||| ||||||||||| || ||||| ||  | || | |||||| ||| |  | || || || |  ||  | || |||| || |   | || | ||||  | | | |   |  | |   |||| | ||  | || |||| | | |  |||  || ||   | |||| |  |   ||     
TGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCTAAAGATCAGCATAACAGgtatgct---agatcttaacttctgtgtgtgcttgtgattcattctttatcgcacttctctt-gttatgtgatatgtcttaggtttttcatttctttaggaagg

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 16
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 21
TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgtttgttccaaaatgtaaactgatttttttctacgctcttttctctctctaatttatctttgcttttagatccgttttcta--tttcgtaacggc--agattat-----------------------------------------------------------------
||||| | |||||||||||||||||||| |||||||||||||| ||||||||||| || |||||| | ||| | || || || ||||  ||  | ||||||| ||    | |||||        |||      |  | |  | |    ||   ||||  | | |  || |   || | | |  |  | ||| ||   | ||| |                                                                 
TACTTTTAAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGAGATTTGGAACAGGCTAATGAAGTCTTACCTTCAATTCCTAAGGAGCACCATAATAGgtatg----agaatgtg------ctttccctcgcattatggt-tacagctggattatggt-gttagtaaacatgtatccaaggtcacataatggtttaaattgttttcctaaattcacgcattcctacttttctgattctcgacttcaaaatcctgttcgttttgtcag

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 16
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 17
TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgt-ttgttccaaaatgtaaactgatttttttctacgctcttttctctctctaatttatctttgcttttagatccgttttctatttcgtaac--ggcagattat
||||||| | |||||||||||||||||| ||||| |||||||| || ||  ||| ||||| |||||||||| | |  || ||  | |  || ||||||||||  ||      |  ||| |||||        ||   | | |    |   |  | ||  | ||   | || |     |   ||||  || |  |  |||||  
TACTTCTCAATTTGATTGAGTACAAGACACTTGTAATGCGTGGAGACTTTCAACGTGCAAGTGAAATTTTACCTTTGATTCCTCAAGAGCACTACAATAGgtactgaaattcatagtatactgacagcaaagta-attgtgtgaatttgatggtgtagatgtgtcctcaggttgtagtctgatttgatagcttgctagatt--

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 16
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 17
TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgtttgttccaaaatgtaaactgatttttttctacgctcttttctctctctaa----tttatctttgcttttagatccgttttctatttcgtaacggcagattat-
||||||| |||||||||||||||||||| |||||||||||||| ||  ||||||  || |||||| ||||| | || || || || | |||  | |||||||   || | |  |||   ||| |  |   | ||  |    |      | ||    |  |   | |  ||| ||||   ||  | ||| ||   || |  || | 
TACTTCTCAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGTGACCTGGAACGGGCCAATGAACTTTTACCTTCAATTCCCAAAGAACATCATAATAGgtaaatttctac-tgttggctgttggtaaacaacagtaaaataagaggcaaacacttacaatgtagtatttggatc---ttcatgttttgtgg-ggaattttgta

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|32832815|gb|CD972493.1|CD972493
EST:     GAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAG                         TGTTGCTCATTTTTTGGAATCTAGAGGTATGTTGGAAGAGGCTCTTGAGAT
genomic: GAACATGCAAATGAAATTTTATCATCCATACCAAAGGCACAATACAATAGgtttgttcca ... catatggcagTGTTGCTCATTTTTTGGAATCTAGAGGTATGTTGGAAGAGGCTCTTGAGAT