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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTCAACTTCGCCATGGTCGATAACGGCATCTTCCGCTCAGGTTTTCCCGACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctgaatttgagccctttttgcttcgttttaggctctgatcttgaactgagaaatgttaatttagggttttggttttctttttcttttttttggttgaattttcatttag

Basic information

species Vitis vinifera
transcript Vv12s0059g01400.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0059g01400.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os06g10650.1 (Oryza sativa), 5'ss of exon 1
CTCTCAACTTCGCCATGGTCGATAACGGCATCTTCCGCTCAGGTTTTCCCGACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctgaatttgagccctttttgcttcgttttaggctctgatcttgaactgagaaatgttaatttagggttttggttttctttttcttttttttg-gttgaattttcatttag------------------------
| ||||||||||| ||||||||  |||||||||||||||| || || ||||   | |||||||||   ||| |  |  | ||    ||||| || ||| ||||||   ||||||     || | |   ||  | |||      | || |  |||    || |     | |||||  | |    |  |||     | || |  |  | ||| | | |                        
CGCTCAACTTCGCGATGGTCGACGACGGCATCTTCCGCTCCGGCTTCCCCGCGGCCGCCAACTTCCGGTTCCTCAAGTCGCTCAACCTCCGCTCCATCGTgtgag---gaattt---ttctctctctctctctctagctagctacctcgt-ctgttgcatctaggggttgggttgggttgggttgcttcgcgggtgtgtggcgcgtgttcgtgtggttctgacgagggtgacgtcatcag

upper sequence: Vv12s0059g01400.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G126765_T01 (Zea mays), 5'ss of exon 1
CTCTCAACTTCGCCATGGTCGATAACGGCATCTTCCGCTCAGGTTTTCCCGACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctgaatttgagccctttttgcttcgttttaggctctgatcttgaactgagaaatgttaatttagggttttggttttctttttcttttttttggttgaattttcatttag
| ||||||||||||||||||||  |||||||||||||||| ||  | || ||| | |||||||||  |||| |||   ||||    || || || ||| ||| ||   |||    ||| |      |  ||       |  |     |     |      | |   |     || | |      |  ||   |   |||| |             
CGCTCAACTTCGCCATGGTCGACGACGGCATCTTCCGCTCGGGCCTCCCGGACGCCGCCAACTTCCGCTTCCTGCTCTCCCTCAACCTGCGCTCCATCGTgtaaggaagaac---agctcg----accccgccccccacgttagcgctagctagcccgccgctctgtcgaccttgttgacacgctgctcgcgtgcgtggtcggcggccag-----

upper sequence: Vv12s0059g01400.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G084086_T01 (Zea mays), 5'ss of exon 1
CTCTCAACTTCGCCATGGTCGATAACGGCATCTTCCGCTCAGGTTTTCCCGACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctgaatttga---gccctttttgctt-cgttttaggctctgatcttgaactgagaaatgttaatttag--ggttttggttttctttttcttttttttggttgaattttcatttag----
| ||||||||||||||||||||  |||||||||||||||| ||  | || ||| | | || ||||  |||| |||   ||||   ||| || ||  || ||| ||     |  |     | |||  | ||   |   ||  ||||||  ||    | |||    |     ||     |     |  |   | | | | |  |||  |||    ||  | |     
CGCTCAACTTCGCCATGGTCGACGACGGCATCTTCCGCTCGGGCCTCCCGGACGCCGGCAGCTTCCGCTTCCTGCTCTCCCTCAATCTGCGCTCCGTCGTgtaagaaaatagctcgtccgtcctactagcccaccgcttcagctctggcctctggc-gagtgccgccgccttgacccgcgacagcgtcgctatgcctatgcttgcgtgaccgatcgatcaatcag

upper sequence: Vv12s0059g01400.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G134389_T01 (Zea mays), 5'ss of exon 1
CTCTCAACTTCGCCATGGTCGATAACGGCATCTTCCGCTCAGGTTTTCCCGACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctgaatttgagccctttttgcttcgttttaggctctgatcttgaactgagaaatgttaatttagggttttggttttctttttcttttttttggttgaattttcatttag
| ||||||||||||||||||||  ||||||| |||||||| || || || || || ||||| |||   ||| |  |  ||||    ||||| || ||| ||| ||  |   |||    |      ||  ||   |     |      | | |    || |  |    |     |  ||   |||    | || |   |    |            
CGCTCAACTTCGCCATGGTCGACGACGGCATATTCCGCTCCGGCTTCCCGGAGACCGCCAATTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtctctttcgctctcccacgccgcgccgtctctcccttgaatcaccgcgaaagttgtcgcgtgctcgtgaggcgctctgaaacgttctggcgcaccag-----------

upper sequence: Vv12s0059g01400.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G070315_T01 (Zea mays), 5'ss of exon 1
CTCTCAACTTCGCCATGGTCGATAACGGCATCTTCCGCTCAGGTTTTCCCGACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctgaatttgagccctttttgcttcgttttaggctctgatcttgaactgagaaatgttaatttagggttttggttttctttttcttttttttggttgaattttcatttag
| |||||||||||| |||||||  |||||||||||||||| || || || |  || |||||||||   ||| |  |  ||||    ||||| || ||| ||| ||  |   |||    |  |       ||     | ||||    |   ||||     || |  |   | | | ||      |    |                          
CGCTCAACTTCGCCGTGGTCGACGACGGCATCTTCCGCTCCGGATTCCCAGGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtctctttcgctctctcccatgccggcgccgtctctcgaatc--actg-----tgctcgtgcggcgctctgaaccgttccagcgcgccag-------------------

upper sequence: Vv12s0059g01400.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA02G43550.1 (Glycine max), 5'ss of exon 1
CTCTCAACTTCGCCATGGTCGATAACGGCATCTTCCGCTCAGGTTTTCCCGACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtct--gaatttgag---ccctttt---------tgcttcgtttta-------ggctctgatcttgaactgagaaatgttaattt------agggttttggttttctttttcttt-------tttttggttgaattttcatttag----------------
| ||||||||||||||||| ||||| ||||| |||||||| || || |||||  | ||||||||| ||||| | |||||||| || |||||||| |||||||  |||     || | |    |||||||         | |||||||||        |    || | ||||      || || | | ||      |  || |   | || |  || ||        ||  || |||  ||||  |||                  
CCCTCAACTTCGCCATGGTTGATAATGGCATTTTCCGCTCCGGCTTCCCCGAACCCGCCAACTTCTCCTTCCTCCAAACCCTCGGCCTCCGTTCCATCATgtctgtcctcacatctcaatcacccttttcttatcttcttcttcgttttgttaacttgatgatgcttttgagtacccaattgatgaattgtgagtaaagtctcaatcttttccttgttgcacgctgttgctgattgtttttttgtttgattgggtgtttttatag

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|30256135|gb|CB971978.1|CB971978
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|351015527|gb|FQ447356.1|FQ447356
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGTTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|26258262|gb|CA809325.1|CA809325
EST:     CTAGGTCTCCGTTCAATCAT                         ATTCCTTTGCCCGGAGAGGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: CTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|26257485|gb|CA808548.1|CA808548
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|351045015|gb|FQ449269.1|FQ449269
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGTTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|71857429|gb|DT006484.1|DT006484
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|110379464|gb|EC944660.1|EC944660
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|351022573|gb|FQ447095.1|FQ447095
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGTTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|351034099|gb|FQ448017.1|FQ448017
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|110362858|gb|EC926416.1|EC926416
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|29785487|gb|CB342539.2|CB342539
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|30253078|gb|CB970629.1|CB970629
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
EST: gi|30256204|gb|CB972047.1|CB972047
EST:     GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCAT                         ATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC
genomic: GACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctga ... tttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTC